Wavelet Entropy and Directed Acyclic Graph Support Vector Machine for Detection of Patients with Unilateral Hearing Loss in MRI Scanning

PubMed Central

Wang, Shuihua; Yang, Ming; Du, Sidan; Yang, Jiquan; Liu, Bin; Gorriz, Juan M.; Ramírez, Javier; Yuan, Ti-Fei; Zhang, Yudong

2016-01-01

Highlights We develop computer-aided diagnosis system for unilateral hearing loss detection in structural magnetic resonance imaging.Wavelet entropy is introduced to extract image global features from brain images. Directed acyclic graph is employed to endow support vector machine an ability to handle multi-class problems.The developed computer-aided diagnosis system achieves an overall accuracy of 95.1% for this three-class problem of differentiating left-sided and right-sided hearing loss from healthy controls. Aim: Sensorineural hearing loss (SNHL) is correlated to many neurodegenerative disease. Now more and more computer vision based methods are using to detect it in an automatic way. Materials: We have in total 49 subjects, scanned by 3.0T MRI (Siemens Medical Solutions, Erlangen, Germany). The subjects contain 14 patients with right-sided hearing loss (RHL), 15 patients with left-sided hearing loss (LHL), and 20 healthy controls (HC). Method: We treat this as a three-class classification problem: RHL, LHL, and HC. Wavelet entropy (WE) was selected from the magnetic resonance images of each subjects, and then submitted to a directed acyclic graph support vector machine (DAG-SVM). Results: The 10 repetition results of 10-fold cross validation shows 3-level decomposition will yield an overall accuracy of 95.10% for this three-class classification problem, higher than feedforward neural network, decision tree, and naive Bayesian classifier. Conclusions: This computer-aided diagnosis system is promising. We hope this study can attract more computer vision method for detecting hearing loss. PMID:27807415

Wavelet Entropy and Directed Acyclic Graph Support Vector Machine for Detection of Patients with Unilateral Hearing Loss in MRI Scanning.

PubMed

Wang, Shuihua; Yang, Ming; Du, Sidan; Yang, Jiquan; Liu, Bin; Gorriz, Juan M; Ramírez, Javier; Yuan, Ti-Fei; Zhang, Yudong

2016-01-01

Highlights We develop computer-aided diagnosis system for unilateral hearing loss detection in structural magnetic resonance imaging.Wavelet entropy is introduced to extract image global features from brain images. Directed acyclic graph is employed to endow support vector machine an ability to handle multi-class problems.The developed computer-aided diagnosis system achieves an overall accuracy of 95.1% for this three-class problem of differentiating left-sided and right-sided hearing loss from healthy controls. Aim: Sensorineural hearing loss (SNHL) is correlated to many neurodegenerative disease. Now more and more computer vision based methods are using to detect it in an automatic way. Materials: We have in total 49 subjects, scanned by 3.0T MRI (Siemens Medical Solutions, Erlangen, Germany). The subjects contain 14 patients with right-sided hearing loss (RHL), 15 patients with left-sided hearing loss (LHL), and 20 healthy controls (HC). Method: We treat this as a three-class classification problem: RHL, LHL, and HC. Wavelet entropy (WE) was selected from the magnetic resonance images of each subjects, and then submitted to a directed acyclic graph support vector machine (DAG-SVM). Results: The 10 repetition results of 10-fold cross validation shows 3-level decomposition will yield an overall accuracy of 95.10% for this three-class classification problem, higher than feedforward neural network, decision tree, and naive Bayesian classifier. Conclusions: This computer-aided diagnosis system is promising. We hope this study can attract more computer vision method for detecting hearing loss.

Wavelet analysis of poorly-focused ultrasonic signal of pressure tube inspection in nuclear industry

NASA Astrophysics Data System (ADS)

Zhao, Huan; Gachagan, Anthony; Dobie, Gordon; Lardner, Timothy

2018-04-01

Pressure tube fabrication and installment challenges combined with natural sagging over time can produce issues with probe alignment for pressure tube inspection of the primary circuit of CANDU reactors. The ability to extract accurate defect depth information from poorly focused ultrasonic signals would reduce additional inspection procedures, which leads to a significant time and cost saving. Currently, the defect depth measurement protocol is to simply calculate the time difference between the peaks of the echo signals from the tube surface and the defect from a single element probe focused at the back-wall depth. When alignment issues are present, incorrect focusing results in interference within the returning echo signal. This paper proposes a novel wavelet analysis method that employs the Haar wavelet to decompose the original poorly focused A-scan signal and reconstruct detailed information based on a selected high frequency component range within the bandwidth of the transducer. Compared to the original signal, the wavelet analysis method provides additional characteristic defect information and an improved estimate of defect depth with errors less than 5%.

Adaptive fuzzy wavelet network control of second order multi-agent systems with unknown nonlinear dynamics.

PubMed

Taheri, Mehdi; Sheikholeslam, Farid; Najafi, Majddedin; Zekri, Maryam

2017-07-01

In this paper, consensus problem is considered for second order multi-agent systems with unknown nonlinear dynamics under undirected graphs. A novel distributed control strategy is suggested for leaderless systems based on adaptive fuzzy wavelet networks. Adaptive fuzzy wavelet networks are employed to compensate for the effect of unknown nonlinear dynamics. Moreover, the proposed method is developed for leader following systems and leader following systems with state time delays. Lyapunov functions are applied to prove uniformly ultimately bounded stability of closed loop systems and to obtain adaptive laws. Three simulation examples are presented to illustrate the effectiveness of the proposed control algorithms. Copyright © 2017 ISA. Published by Elsevier Ltd. All rights reserved.

UV Spectrophotometric Simultaneous Determination of Paracetamol and Ibuprofen in Combined Tablets by Derivative and Wavelet Transforms

PubMed Central

Hoang, Vu Dang; Ly, Dong Thi Ha; Tho, Nguyen Huu; Minh Thi Nguyen, Hue

2014-01-01

The application of first-order derivative and wavelet transforms to UV spectra and ratio spectra was proposed for the simultaneous determination of ibuprofen and paracetamol in their combined tablets. A new hybrid approach on the combined use of first-order derivative and wavelet transforms to spectra was also discussed. In this application, DWT (sym6 and haar), CWT (mexh), and FWT were optimized to give the highest spectral recoveries. Calibration graphs in the linear concentration ranges of ibuprofen (12–32 mg/L) and paracetamol (20–40 mg/L) were obtained by measuring the amplitudes of the transformed signals. Our proposed spectrophotometric methods were statistically compared to HPLC in terms of precision and accuracy. PMID:24949492

UV spectrophotometric simultaneous determination of paracetamol and ibuprofen in combined tablets by derivative and wavelet transforms.

PubMed

Hoang, Vu Dang; Ly, Dong Thi Ha; Tho, Nguyen Huu; Nguyen, Hue Minh Thi

2014-01-01

The application of first-order derivative and wavelet transforms to UV spectra and ratio spectra was proposed for the simultaneous determination of ibuprofen and paracetamol in their combined tablets. A new hybrid approach on the combined use of first-order derivative and wavelet transforms to spectra was also discussed. In this application, DWT (sym6 and haar), CWT (mexh), and FWT were optimized to give the highest spectral recoveries. Calibration graphs in the linear concentration ranges of ibuprofen (12-32 mg/L) and paracetamol (20-40 mg/L) were obtained by measuring the amplitudes of the transformed signals. Our proposed spectrophotometric methods were statistically compared to HPLC in terms of precision and accuracy.

VANLO - Interactive visual exploration of aligned biological networks

PubMed Central

Brasch, Steffen; Linsen, Lars; Fuellen, Georg

2009-01-01

Background Protein-protein interaction (PPI) is fundamental to many biological processes. In the course of evolution, biological networks such as protein-protein interaction networks have developed. Biological networks of different species can be aligned by finding instances (e.g. proteins) with the same common ancestor in the evolutionary process, so-called orthologs. For a better understanding of the evolution of biological networks, such aligned networks have to be explored. Visualization can play a key role in making the various relationships transparent. Results We present a novel visualization system for aligned biological networks in 3D space that naturally embeds existing 2D layouts. In addition to displaying the intra-network connectivities, we also provide insight into how the individual networks relate to each other by placing aligned entities on top of each other in separate layers. We optimize the layout of the entire alignment graph in a global fashion that takes into account inter- as well as intra-network relationships. The layout algorithm includes a step of merging aligned networks into one graph, laying out the graph with respect to application-specific requirements, splitting the merged graph again into individual networks, and displaying the network alignment in layers. In addition to representing the data in a static way, we also provide different interaction techniques to explore the data with respect to application-specific tasks. Conclusion Our system provides an intuitive global understanding of aligned PPI networks and it allows the investigation of key biological questions. We evaluate our system by applying it to real-world examples documenting how our system can be used to investigate the data with respect to these key questions. Our tool VANLO (Visualization of Aligned Networks with Layout Optimization) can be accessed at . PMID:19821976

Automatic classification of protein structures relying on similarities between alignments

PubMed Central

2012-01-01

Background Identification of protein structural cores requires isolation of sets of proteins all sharing a same subset of structural motifs. In the context of an ever growing number of available 3D protein structures, standard and automatic clustering algorithms require adaptations so as to allow for efficient identification of such sets of proteins. Results When considering a pair of 3D structures, they are stated as similar or not according to the local similarities of their matching substructures in a structural alignment. This binary relation can be represented in a graph of similarities where a node represents a 3D protein structure and an edge states that two 3D protein structures are similar. Therefore, classifying proteins into structural families can be viewed as a graph clustering task. Unfortunately, because such a graph encodes only pairwise similarity information, clustering algorithms may include in the same cluster a subset of 3D structures that do not share a common substructure. In order to overcome this drawback we first define a ternary similarity on a triple of 3D structures as a constraint to be satisfied by the graph of similarities. Such a ternary constraint takes into account similarities between pairwise alignments, so as to ensure that the three involved protein structures do have some common substructure. We propose hereunder a modification algorithm that eliminates edges from the original graph of similarities and gives a reduced graph in which no ternary constraints are violated. Our approach is then first to build a graph of similarities, then to reduce the graph according to the modification algorithm, and finally to apply to the reduced graph a standard graph clustering algorithm. Such method was used for classifying ASTRAL-40 non-redundant protein domains, identifying significant pairwise similarities with Yakusa, a program devised for rapid 3D structure alignments. Conclusions We show that filtering similarities prior to standard graph based clustering process by applying ternary similarity constraints i) improves the separation of proteins of different classes and consequently ii) improves the classification quality of standard graph based clustering algorithms according to the reference classification SCOP. PMID:22974051

Aligning Biomolecular Networks Using Modular Graph Kernels

NASA Astrophysics Data System (ADS)

Towfic, Fadi; Greenlee, M. Heather West; Honavar, Vasant

Comparative analysis of biomolecular networks constructed using measurements from different conditions, tissues, and organisms offer a powerful approach to understanding the structure, function, dynamics, and evolution of complex biological systems. We explore a class of algorithms for aligning large biomolecular networks by breaking down such networks into subgraphs and computing the alignment of the networks based on the alignment of their subgraphs. The resulting subnetworks are compared using graph kernels as scoring functions. We provide implementations of the resulting algorithms as part of BiNA, an open source biomolecular network alignment toolkit. Our experiments using Drosophila melanogaster, Saccharomyces cerevisiae, Mus musculus and Homo sapiens protein-protein interaction networks extracted from the DIP repository of protein-protein interaction data demonstrate that the performance of the proposed algorithms (as measured by % GO term enrichment of subnetworks identified by the alignment) is competitive with some of the state-of-the-art algorithms for pair-wise alignment of large protein-protein interaction networks. Our results also show that the inter-species similarity scores computed based on graph kernels can be used to cluster the species into a species tree that is consistent with the known phylogenetic relationships among the species.

Infrared and visible image fusion with spectral graph wavelet transform.

PubMed

Yan, Xiang; Qin, Hanlin; Li, Jia; Zhou, Huixin; Zong, Jing-guo

2015-09-01

Infrared and visible image fusion technique is a popular topic in image analysis because it can integrate complementary information and obtain reliable and accurate description of scenes. Multiscale transform theory as a signal representation method is widely used in image fusion. In this paper, a novel infrared and visible image fusion method is proposed based on spectral graph wavelet transform (SGWT) and bilateral filter. The main novelty of this study is that SGWT is used for image fusion. On the one hand, source images are decomposed by SGWT in its transform domain. The proposed approach not only effectively preserves the details of different source images, but also excellently represents the irregular areas of the source images. On the other hand, a novel weighted average method based on bilateral filter is proposed to fuse low- and high-frequency subbands by taking advantage of spatial consistency of natural images. Experimental results demonstrate that the proposed method outperforms seven recently proposed image fusion methods in terms of both visual effect and objective evaluation metrics.

Analyzing and synthesizing phylogenies using tree alignment graphs.

PubMed

Smith, Stephen A; Brown, Joseph W; Hinchliff, Cody E

2013-01-01

Phylogenetic trees are used to analyze and visualize evolution. However, trees can be imperfect datatypes when summarizing multiple trees. This is especially problematic when accommodating for biological phenomena such as horizontal gene transfer, incomplete lineage sorting, and hybridization, as well as topological conflict between datasets. Additionally, researchers may want to combine information from sets of trees that have partially overlapping taxon sets. To address the problem of analyzing sets of trees with conflicting relationships and partially overlapping taxon sets, we introduce methods for aligning, synthesizing and analyzing rooted phylogenetic trees within a graph, called a tree alignment graph (TAG). The TAG can be queried and analyzed to explore uncertainty and conflict. It can also be synthesized to construct trees, presenting an alternative to supertrees approaches. We demonstrate these methods with two empirical datasets. In order to explore uncertainty, we constructed a TAG of the bootstrap trees from the Angiosperm Tree of Life project. Analysis of the resulting graph demonstrates that areas of the dataset that are unresolved in majority-rule consensus tree analyses can be understood in more detail within the context of a graph structure, using measures incorporating node degree and adjacency support. As an exercise in synthesis (i.e., summarization of a TAG constructed from the alignment trees), we also construct a TAG consisting of the taxonomy and source trees from a recent comprehensive bird study. We synthesized this graph into a tree that can be reconstructed in a repeatable fashion and where the underlying source information can be updated. The methods presented here are tractable for large scale analyses and serve as a basis for an alternative to consensus tree and supertree methods. Furthermore, the exploration of these graphs can expose structures and patterns within the dataset that are otherwise difficult to observe.

Analyzing and Synthesizing Phylogenies Using Tree Alignment Graphs

PubMed Central

Smith, Stephen A.; Brown, Joseph W.; Hinchliff, Cody E.

2013-01-01

Phylogenetic trees are used to analyze and visualize evolution. However, trees can be imperfect datatypes when summarizing multiple trees. This is especially problematic when accommodating for biological phenomena such as horizontal gene transfer, incomplete lineage sorting, and hybridization, as well as topological conflict between datasets. Additionally, researchers may want to combine information from sets of trees that have partially overlapping taxon sets. To address the problem of analyzing sets of trees with conflicting relationships and partially overlapping taxon sets, we introduce methods for aligning, synthesizing and analyzing rooted phylogenetic trees within a graph, called a tree alignment graph (TAG). The TAG can be queried and analyzed to explore uncertainty and conflict. It can also be synthesized to construct trees, presenting an alternative to supertrees approaches. We demonstrate these methods with two empirical datasets. In order to explore uncertainty, we constructed a TAG of the bootstrap trees from the Angiosperm Tree of Life project. Analysis of the resulting graph demonstrates that areas of the dataset that are unresolved in majority-rule consensus tree analyses can be understood in more detail within the context of a graph structure, using measures incorporating node degree and adjacency support. As an exercise in synthesis (i.e., summarization of a TAG constructed from the alignment trees), we also construct a TAG consisting of the taxonomy and source trees from a recent comprehensive bird study. We synthesized this graph into a tree that can be reconstructed in a repeatable fashion and where the underlying source information can be updated. The methods presented here are tractable for large scale analyses and serve as a basis for an alternative to consensus tree and supertree methods. Furthermore, the exploration of these graphs can expose structures and patterns within the dataset that are otherwise difficult to observe. PMID:24086118

Graph edit distance from spectral seriation.

PubMed

Robles-Kelly, Antonio; Hancock, Edwin R

2005-03-01

This paper is concerned with computing graph edit distance. One of the criticisms that can be leveled at existing methods for computing graph edit distance is that they lack some of the formality and rigor of the computation of string edit distance. Hence, our aim is to convert graphs to string sequences so that string matching techniques can be used. To do this, we use a graph spectral seriation method to convert the adjacency matrix into a string or sequence order. We show how the serial ordering can be established using the leading eigenvector of the graph adjacency matrix. We pose the problem of graph-matching as a maximum a posteriori probability (MAP) alignment of the seriation sequences for pairs of graphs. This treatment leads to an expression in which the edit cost is the negative logarithm of the a posteriori sequence alignment probability. We compute the edit distance by finding the sequence of string edit operations which minimizes the cost of the path traversing the edit lattice. The edit costs are determined by the components of the leading eigenvectors of the adjacency matrix and by the edge densities of the graphs being matched. We demonstrate the utility of the edit distance on a number of graph clustering problems.

Representing k-graphs as Matrix Algebras

NASA Astrophysics Data System (ADS)

Rosjanuardi, R.

2018-05-01

For any commutative unital ring R and finitely aligned k-graph Λ with |Λ| < ∞ without cycles, we can realise Kumjian-Pask algebra KP R (Λ) as a direct sum of of matrix algebra over some vertices v with properties ν = νΛ, i.e: ⊕ νΛ=ν M |Λv|(R). When there is only a single vertex ν ∈ Λ° such that ν = νΛ, we can realise the Kumjian-Pask algebra as the matrix algebra M |ΛV|(R). Hence the matrix algebra M |vΛ|(R) can be regarded as a representation of the k-graph Λ. In this talk we will figure out the relation between finitely aligned k-graph and matrix algebra.

Application of fast Fourier transform cross-correlation and mass spectrometry data for accurate alignment of chromatograms.

PubMed

Zheng, Yi-Bao; Zhang, Zhi-Min; Liang, Yi-Zeng; Zhan, De-Jian; Huang, Jian-Hua; Yun, Yong-Huan; Xie, Hua-Lin

2013-04-19

Chromatography has been established as one of the most important analytical methods in the modern analytical laboratory. However, preprocessing of the chromatograms, especially peak alignment, is usually a time-consuming task prior to extracting useful information from the datasets because of the small unavoidable differences in the experimental conditions caused by minor changes and drift. Most of the alignment algorithms are performed on reduced datasets using only the detected peaks in the chromatograms, which means a loss of data and introduces the problem of extraction of peak data from the chromatographic profiles. These disadvantages can be overcome by using the full chromatographic information that is generated from hyphenated chromatographic instruments. A new alignment algorithm called CAMS (Chromatogram Alignment via Mass Spectra) is present here to correct the retention time shifts among chromatograms accurately and rapidly. In this report, peaks of each chromatogram were detected based on Continuous Wavelet Transform (CWT) with Haar wavelet and were aligned against the reference chromatogram via the correlation of mass spectra. The aligning procedure was accelerated by Fast Fourier Transform cross correlation (FFT cross correlation). This approach has been compared with several well-known alignment methods on real chromatographic datasets, which demonstrates that CAMS can preserve the shape of peaks and achieve a high quality alignment result. Furthermore, the CAMS method was implemented in the Matlab language and available as an open source package at http://www.github.com/matchcoder/CAMS. Copyright © 2013. Published by Elsevier B.V.

Multiscale 3D Shape Analysis using Spherical Wavelets

PubMed Central

Nain, Delphine; Haker, Steven; Bobick, Aaron; Tannenbaum, Allen

2013-01-01

Shape priors attempt to represent biological variations within a population. When variations are global, Principal Component Analysis (PCA) can be used to learn major modes of variation, even from a limited training set. However, when significant local variations exist, PCA typically cannot represent such variations from a small training set. To address this issue, we present a novel algorithm that learns shape variations from data at multiple scales and locations using spherical wavelets and spectral graph partitioning. Our results show that when the training set is small, our algorithm significantly improves the approximation of shapes in a testing set over PCA, which tends to oversmooth data. PMID:16685992

Multiscale 3D shape analysis using spherical wavelets.

PubMed

Nain, Delphine; Haker, Steven; Bobick, Aaron; Tannenbaum, Allen R

2005-01-01

Shape priors attempt to represent biological variations within a population. When variations are global, Principal Component Analysis (PCA) can be used to learn major modes of variation, even from a limited training set. However, when significant local variations exist, PCA typically cannot represent such variations from a small training set. To address this issue, we present a novel algorithm that learns shape variations from data at multiple scales and locations using spherical wavelets and spectral graph partitioning. Our results show that when the training set is small, our algorithm significantly improves the approximation of shapes in a testing set over PCA, which tends to oversmooth data.

Continuous wavelet transforms for the simultaneous quantitative analysis and dissolution testing of lamivudine-zidovudine tablets.

PubMed

Dinç, Erdal; Özdemir, Nurten; Üstündağ, Özgür; Tilkan, Müşerref Günseli

2013-01-01

Dissolution testing has a very vital importance for a quality control test and prediction of the in vivo behavior of the oral dosage formulation. This requires the use of a powerful analytical method to get reliable, accurate and precise results for the dissolution experiments. In this context, new signal processing approaches, continuous wavelet transforms (CWTs) were improved for the simultaneous quantitative estimation and dissolution testing of lamivudine (LAM) and zidovudine (ZID) in a tablet dosage form. The CWT approaches are based on the application of the continuous wavelet functions to the absorption spectra-data vectors of LAM and ZID in the wavelet domain. After applying many wavelet functions, the families consisting of Mexican hat wavelet with the scaling factor a=256, Symlets wavelet with the scaling factor a=512 and the order of 5 and Daubechies wavelet at the scale factor a=450 and the order of 10 were found to be suitable for the quantitative determination of the mentioned drugs. These wavelet applications were named as mexh-CWT, sym5-CWT and db10-CWT methods. Calibration graphs for LAM and ZID in the working range of 2.0-50.0 µg/mL and 2.0-60.0 µg/mL were obtained measuring the mexh-CWT, sym5-CWT and db10-CWT amplitudes at the wavelength points corresponding to zero crossing points. The validity and applicability of the improved mexh-CWT, sym5-CWT and db10-CWT approaches was carried out by the analysis of the synthetic mixtures containing the analyzed drugs. Simultaneous determination of LAM and ZID in tablets was accomplished by the proposed CWT methods and their dissolution profiles were graphically explored.

Evaluating approaches to find exon chains based on long reads.

PubMed

Kuosmanen, Anna; Norri, Tuukka; Mäkinen, Veli

2018-05-01

Transcript prediction can be modeled as a graph problem where exons are modeled as nodes and reads spanning two or more exons are modeled as exon chains. Pacific Biosciences third-generation sequencing technology produces significantly longer reads than earlier second-generation sequencing technologies, which gives valuable information about longer exon chains in a graph. However, with the high error rates of third-generation sequencing, aligning long reads correctly around the splice sites is a challenging task. Incorrect alignments lead to spurious nodes and arcs in the graph, which in turn lead to incorrect transcript predictions. We survey several approaches to find the exon chains corresponding to long reads in a splicing graph, and experimentally study the performance of these methods using simulated data to allow for sensitivity/precision analysis. Our experiments show that short reads from second-generation sequencing can be used to significantly improve exon chain correctness either by error-correcting the long reads before splicing graph creation, or by using them to create a splicing graph on which the long-read alignments are then projected. We also study the memory and time consumption of various modules, and show that accurate exon chains lead to significantly increased transcript prediction accuracy. The simulated data and in-house scripts used for this article are available at http://www.cs.helsinki.fi/group/gsa/exon-chains/exon-chains-bib.tar.bz2.

Latitudinal and longitudinal behavior of the geomagnetic field during a disturbed period: A case study using wavelet techniques

NASA Astrophysics Data System (ADS)

Klausner, Virginia; Domingues, Margarete Oliveira; Mendes, Odim; da Costa, Aracy Mendes; Papa, Andres Reinaldo Rodriguez; Gonzalez, Arian Ojeda

2016-11-01

Coronal mass ejections are the primary cause of the highly disturbed conditions observed in the magnetosphere. Momentum and energy from the solar wind are transferred to the Earth's magnetosphere mainly via magnetic reconnection which produces open field lines connecting the Earth magnetic field to the solar wind. Magnetospheric currents are coupled to the ionosphere through field-aligned currents. This particular characteristic of the magnetosphere-ionosphere interconnection is discussed here on the basis of the energy transfer from high (auroral currents) to low-latitudes (ring current). The objective of this work is to examine how the conditions during a magnetic storm can affect the global space and time configuration of the ring current, and, how these processes can affect the region of the South Atlantic Magnetic Anomaly. The H- or X-components of the Earth's magnetic field were examined using a set of six magnetometers approximately aligned around the geographic longitude at about 10 °, 140 ° and 295 ° from latitudes of 70 ° N to 70 ° S and aligned throughout the equatorial region, for the event of October 18-22, 1998. The investigation of simultaneous observations of data measured at different locations makes it possible to determine the effects of the magnetosphere-ionosphere coupling, and, it tries to establish some relationships among them. This work also compares the responses of the aligned magnetic observatories to the responses in the South Atlantic Magnetic Anomaly region. The major contribution of this paper is related to the applied methodology of the discrete wavelet transform. The wavelet coefficients are used as a filter to extract the information in high frequencies of the analyzed magnetogram. They also better represent information about the injections of energy and, consequently, the disturbances of the geomagnetic field measured on the ground. As a result, we present a better way to visualize the correlation between the X- or H-components. In the latitude range from ∼ 40 ° S to ∼ 60 ° N, the wavelet signatures do not show remarkable differences, except for the amplitudes of the wavelet coefficients. The sequence of transient field variations detected at auroral latitudes is probably associated to occurrences of substorms, while at lower latitudes, these variations are associated to the enhancement of the ring current.

Use of multiresolution wavelet feature pyramids for automatic registration of multisensor imagery

NASA Technical Reports Server (NTRS)

Zavorin, Ilya; Le Moigne, Jacqueline

2005-01-01

The problem of image registration, or the alignment of two or more images representing the same scene or object, has to be addressed in various disciplines that employ digital imaging. In the area of remote sensing, just like in medical imaging or computer vision, it is necessary to design robust, fast, and widely applicable algorithms that would allow automatic registration of images generated by various imaging platforms at the same or different times and that would provide subpixel accuracy. One of the main issues that needs to be addressed when developing a registration algorithm is what type of information should be extracted from the images being registered, to be used in the search for the geometric transformation that best aligns them. The main objective of this paper is to evaluate several wavelet pyramids that may be used both for invariant feature extraction and for representing images at multiple spatial resolutions to accelerate registration. We find that the bandpass wavelets obtained from the steerable pyramid due to Simoncelli performs best in terms of accuracy and consistency, while the low-pass wavelets obtained from the same pyramid give the best results in terms of the radius of convergence. Based on these findings, we propose a modification of a gradient-based registration algorithm that has recently been developed for medical data. We test the modified algorithm on several sets of real and synthetic satellite imagery.

Automatic Image Registration of Multimodal Remotely Sensed Data with Global Shearlet Features

NASA Technical Reports Server (NTRS)

Murphy, James M.; Le Moigne, Jacqueline; Harding, David J.

2015-01-01

Automatic image registration is the process of aligning two or more images of approximately the same scene with minimal human assistance. Wavelet-based automatic registration methods are standard, but sometimes are not robust to the choice of initial conditions. That is, if the images to be registered are too far apart relative to the initial guess of the algorithm, the registration algorithm does not converge or has poor accuracy, and is thus not robust. These problems occur because wavelet techniques primarily identify isotropic textural features and are less effective at identifying linear and curvilinear edge features. We integrate the recently developed mathematical construction of shearlets, which is more effective at identifying sparse anisotropic edges, with an existing automatic wavelet-based registration algorithm. Our shearlet features algorithm produces more distinct features than wavelet features algorithms; the separation of edges from textures is even stronger than with wavelets. Our algorithm computes shearlet and wavelet features for the images to be registered, then performs least squares minimization on these features to compute a registration transformation. Our algorithm is two-staged and multiresolution in nature. First, a cascade of shearlet features is used to provide a robust, though approximate, registration. This is then refined by registering with a cascade of wavelet features. Experiments across a variety of image classes show an improved robustness to initial conditions, when compared to wavelet features alone.

Automatic Image Registration of Multi-Modal Remotely Sensed Data with Global Shearlet Features

PubMed Central

Murphy, James M.; Le Moigne, Jacqueline; Harding, David J.

2017-01-01

Automatic image registration is the process of aligning two or more images of approximately the same scene with minimal human assistance. Wavelet-based automatic registration methods are standard, but sometimes are not robust to the choice of initial conditions. That is, if the images to be registered are too far apart relative to the initial guess of the algorithm, the registration algorithm does not converge or has poor accuracy, and is thus not robust. These problems occur because wavelet techniques primarily identify isotropic textural features and are less effective at identifying linear and curvilinear edge features. We integrate the recently developed mathematical construction of shearlets, which is more effective at identifying sparse anisotropic edges, with an existing automatic wavelet-based registration algorithm. Our shearlet features algorithm produces more distinct features than wavelet features algorithms; the separation of edges from textures is even stronger than with wavelets. Our algorithm computes shearlet and wavelet features for the images to be registered, then performs least squares minimization on these features to compute a registration transformation. Our algorithm is two-staged and multiresolution in nature. First, a cascade of shearlet features is used to provide a robust, though approximate, registration. This is then refined by registering with a cascade of wavelet features. Experiments across a variety of image classes show an improved robustness to initial conditions, when compared to wavelet features alone. PMID:29123329

Theory of wavelet-based coarse-graining hierarchies for molecular dynamics.

PubMed

Rinderspacher, Berend Christopher; Bardhan, Jaydeep P; Ismail, Ahmed E

2017-07-01

We present a multiresolution approach to compressing the degrees of freedom and potentials associated with molecular dynamics, such as the bond potentials. The approach suggests a systematic way to accelerate large-scale molecular simulations with more than two levels of coarse graining, particularly applications of polymeric materials. In particular, we derive explicit models for (arbitrarily large) linear (homo)polymers and iterative methods to compute large-scale wavelet decompositions from fragment solutions. This approach does not require explicit preparation of atomistic-to-coarse-grained mappings, but instead uses the theory of diffusion wavelets for graph Laplacians to develop system-specific mappings. Our methodology leads to a hierarchy of system-specific coarse-grained degrees of freedom that provides a conceptually clear and mathematically rigorous framework for modeling chemical systems at relevant model scales. The approach is capable of automatically generating as many coarse-grained model scales as necessary, that is, to go beyond the two scales in conventional coarse-grained strategies; furthermore, the wavelet-based coarse-grained models explicitly link time and length scales. Furthermore, a straightforward method for the reintroduction of omitted degrees of freedom is presented, which plays a major role in maintaining model fidelity in long-time simulations and in capturing emergent behaviors.

A novel alignment-free method to classify protein folding types by combining spectral graph clustering with Chou's pseudo amino acid composition.

PubMed

Tripathi, Pooja; Pandey, Paras N

2017-07-07

The present work employs pseudo amino acid composition (PseAAC) for encoding the protein sequences in their numeric form. Later this will be arranged in the similarity matrix, which serves as input for spectral graph clustering method. Spectral methods are used previously also for clustering of protein sequences, but they uses pair wise alignment scores of protein sequences, in similarity matrix. The alignment score depends on the length of sequences, so clustering short and long sequences together may not good idea. Therefore the idea of introducing PseAAC with spectral clustering algorithm came into scene. We extensively tested our method and compared its performance with other existing machine learning methods. It is consistently observed that, the number of clusters that we obtained for a given set of proteins is close to the number of superfamilies in that set and PseAAC combined with spectral graph clustering shows the best classification results. Copyright © 2017 Elsevier Ltd. All rights reserved.

Directed differential connectivity graph of interictal epileptiform discharges

PubMed Central

Amini, Ladan; Jutten, Christian; Achard, Sophie; David, Olivier; Soltanian-Zadeh, Hamid; Hossein-Zadeh, Gh. Ali; Kahane, Philippe; Minotti, Lorella; Vercueil, Laurent

2011-01-01

In this paper, we study temporal couplings between interictal events of spatially remote regions in order to localize the leading epileptic regions from intracerebral electroencephalogram (iEEG). We aim to assess whether quantitative epileptic graph analysis during interictal period may be helpful to predict the seizure onset zone of ictal iEEG. Using wavelet transform, cross-correlation coefficient, and multiple hypothesis test, we propose a differential connectivity graph (DCG) to represent the connections that change significantly between epileptic and non-epileptic states as defined by the interictal events. Post-processings based on mutual information and multi-objective optimization are proposed to localize the leading epileptic regions through DCG. The suggested approach is applied on iEEG recordings of five patients suffering from focal epilepsy. Quantitative comparisons of the proposed epileptic regions within ictal onset zones detected by visual inspection and using electrically stimulated seizures, reveal good performance of the present method. PMID:21156385

HAL: a hierarchical format for storing and analyzing multiple genome alignments.

PubMed

Hickey, Glenn; Paten, Benedict; Earl, Dent; Zerbino, Daniel; Haussler, David

2013-05-15

Large multiple genome alignments and inferred ancestral genomes are ideal resources for comparative studies of molecular evolution, and advances in sequencing and computing technology are making them increasingly obtainable. These structures can provide a rich understanding of the genetic relationships between all subsets of species they contain. Current formats for storing genomic alignments, such as XMFA and MAF, are all indexed or ordered using a single reference genome, however, which limits the information that can be queried with respect to other species and clades. This loss of information grows with the number of species under comparison, as well as their phylogenetic distance. We present HAL, a compressed, graph-based hierarchical alignment format for storing multiple genome alignments and ancestral reconstructions. HAL graphs are indexed on all genomes they contain. Furthermore, they are organized phylogenetically, which allows for modular and parallel access to arbitrary subclades without fragmentation because of rearrangements that have occurred in other lineages. HAL graphs can be created or read with a comprehensive C++ API. A set of tools is also provided to perform basic operations, such as importing and exporting data, identifying mutations and coordinate mapping (liftover). All documentation and source code for the HAL API and tools are freely available at http://github.com/glennhickey/hal. hickey@soe.ucsc.edu or haussler@soe.ucsc.edu Supplementary data are available at Bioinformatics online.

Alignment of Tractograms As Graph Matching.

PubMed

Olivetti, Emanuele; Sharmin, Nusrat; Avesani, Paolo

2016-01-01

The white matter pathways of the brain can be reconstructed as 3D polylines, called streamlines, through the analysis of diffusion magnetic resonance imaging (dMRI) data. The whole set of streamlines is called tractogram and represents the structural connectome of the brain. In multiple applications, like group-analysis, segmentation, or atlasing, tractograms of different subjects need to be aligned. Typically, this is done with registration methods, that transform the tractograms in order to increase their similarity. In contrast with transformation-based registration methods, in this work we propose the concept of tractogram correspondence, whose aim is to find which streamline of one tractogram corresponds to which streamline in another tractogram, i.e., a map from one tractogram to another. As a further contribution, we propose to use the relational information of each streamline, i.e., its distances from the other streamlines in its own tractogram, as the building block to define the optimal correspondence. We provide an operational procedure to find the optimal correspondence through a combinatorial optimization problem and we discuss its similarity to the graph matching problem. In this work, we propose to represent tractograms as graphs and we adopt a recent inexact sub-graph matching algorithm to approximate the solution of the tractogram correspondence problem. On tractograms generated from the Human Connectome Project dataset, we report experimental evidence that tractogram correspondence, implemented as graph matching, provides much better alignment than affine registration and comparable if not better results than non-linear registration of volumes.

Next generation data harmonization

NASA Astrophysics Data System (ADS)

Armstrong, Chandler; Brown, Ryan M.; Chaves, Jillian; Czerniejewski, Adam; Del Vecchio, Justin; Perkins, Timothy K.; Rudnicki, Ron; Tauer, Greg

2015-05-01

Analysts are presented with a never ending stream of data sources. Often, subsets of data sources to solve problems are easily identified but the process to align data sets is time consuming. However, many semantic technologies do allow for fast harmonization of data to overcome these problems. These include ontologies that serve as alignment targets, visual tools and natural language processing that generate semantic graphs in terms of the ontologies, and analytics that leverage these graphs. This research reviews a developed prototype that employs all these approaches to perform analysis across disparate data sources documenting violent, extremist events.

A modified multiscale peak alignment method combined with trilinear decomposition to study the volatile/heat-labile components in Ligusticum chuanxiong Hort - Cyperus rotundus rhizomes by HS-SPME-GC/MS.

PubMed

He, Min; Yan, Pan; Yang, Zhi-Yu; Zhang, Zhi-Min; Yang, Tian-Biao; Hong, Liang

2018-03-15

Head Space/Solid Phase Micro-Extraction (HS-SPME) coupled with Gas Chromatography/Mass Spectrometer (GC/MS) was used to determine the volatile/heat-labile components in Ligusticum chuanxiong Hort - Cyperus rotundus rhizomes. Facing co-eluting peaks in k samples, a trilinear structure was reconstructed to obtain the second-order advantage. The retention time (RT) shift with multi-channel detection signals for different samples has been vital in maintaining the trilinear structure, thus a modified multiscale peak alignment (mMSPA) method was proposed in this paper. The peak position and peak width of representative ion profile were firstly detected by mMSPA using Continuous Wavelet Transform with Haar wavelet as the mother wavelet (Haar CWT). Then, the raw shift was confirmed by Fast Fourier Transform (FFT) cross correlation calculation. To obtain the optimal shift, Haar CWT was again used to detect the subtle deviations and be amalgamated in calculation. Here, to ensure there is no peaks shape alternation, the alignment was performed in local domains of data matrices, and all data points in the peak zone were moved via linear interpolation in non-peak parts. Finally, chemical components of interest in Ligusticum chuanxiong Hort - Cyperus rotundus rhizomes were analyzed by HS-SPME-GCMS and mMSPA-alternating trilinear decomposition (ATLD) resolution. As a result, the concentration variation between herbs and their pharmaceutical products can provide a scientific basic for the quality standard establishment of traditional Chinese medicines. Copyright © 2018 Elsevier B.V. All rights reserved.

A new graph-based method for pairwise global network alignment

PubMed Central

Klau, Gunnar W

2009-01-01

Background In addition to component-based comparative approaches, network alignments provide the means to study conserved network topology such as common pathways and more complex network motifs. Yet, unlike in classical sequence alignment, the comparison of networks becomes computationally more challenging, as most meaningful assumptions instantly lead to NP-hard problems. Most previous algorithmic work on network alignments is heuristic in nature. Results We introduce the graph-based maximum structural matching formulation for pairwise global network alignment. We relate the formulation to previous work and prove NP-hardness of the problem. Based on the new formulation we build upon recent results in computational structural biology and present a novel Lagrangian relaxation approach that, in combination with a branch-and-bound method, computes provably optimal network alignments. The Lagrangian algorithm alone is a powerful heuristic method, which produces solutions that are often near-optimal and – unlike those computed by pure heuristics – come with a quality guarantee. Conclusion Computational experiments on the alignment of protein-protein interaction networks and on the classification of metabolic subnetworks demonstrate that the new method is reasonably fast and has advantages over pure heuristics. Our software tool is freely available as part of the LISA library. PMID:19208162

Simultaneous determination of chloramphenicol, dexamethasone and naphazoline in ternary and quaternary mixtures by RP-HPLC, derivative and wavelet transforms of UV ratio spectra

NASA Astrophysics Data System (ADS)

Hoang, Vu Dang; Hue, Nguyen Thu; Tho, Nguyen Huu; Nguyen, Hue Minh Thi

2015-03-01

The application of chemometrics-assisted UV spectrophotometry and RP-HPLC to the simultaneous determination of chloramphenicol, dexamethasone and naphazoline in ternary and quaternary mixtures is presented. The spectrophotometric procedure is based on the first-order derivative and wavelet transforms of ratio spectra using single, double and successive divisors. The ratio spectra were differentiated and smoothed using Savitzky-Golay filter; whereas wavelet transform realized with wavelet functions (i.e. db6, gaus5 and coif3) to obtain highest spectral recoveries. For the RP-HPLC procedure, the separation was achieved on a ZORBAX SB-C18 (150 × 4.6 mm; 5 μm) column at ambient temperature and the total run time was less than 7 min. A mixture of acetonitrile - 25 mM phosphate buffer pH 3 (27:73, v/v) was used as the mobile phase at a flow rate of 1.0 mL/min and the effluent monitored by measuring absorbance at 220 nm. Calibration graphs were established in the range 20-70 mg/L for chloramphenicol, 6-14 mg/L for dexamethasone and 3-8 mg/L for naphazoline (R2 > 0.990). The RP-HPLC and ratio spectra transformed by a combination of derivative-wavelet algorithms proved to be able to successfully determine all analytes in commercial eye drop formulations without sample matrix interference (mean percent recoveries, 97.4-104.3%).

Improved visibility graph fractality with application for the diagnosis of Autism Spectrum Disorder

NASA Astrophysics Data System (ADS)

Ahmadlou, Mehran; Adeli, Hojjat; Adeli, Amir

2012-10-01

Recently, the visibility graph (VG) algorithm was proposed for mapping a time series to a graph to study complexity and fractality of the time series through investigation of the complexity of its graph. The visibility graph algorithm converts a fractal time series to a scale-free graph. VG has been used for the investigation of fractality in the dynamic behavior of both artificial and natural complex systems. However, robustness and performance of the power of scale-freeness of VG (PSVG) as an effective method for measuring fractality has not been investigated. Since noise is unavoidable in real life time series, the robustness of a fractality measure is of paramount importance. To improve the accuracy and robustness of PSVG to noise for measurement of fractality of time series in biological time-series, an improved PSVG is presented in this paper. The proposed method is evaluated using two examples: a synthetic benchmark time series and a complicated real life Electroencephalograms (EEG)-based diagnostic problem, that is distinguishing autistic children from non-autistic children. It is shown that the proposed improved PSVG is less sensitive to noise and therefore more robust compared with PSVG. Further, it is shown that using improved PSVG in the wavelet-chaos neural network model of Adeli and c-workers in place of the Katz fractality dimension results in a more accurate diagnosis of autism, a complicated neurological and psychiatric disorder.

An extensive assessment of network alignment algorithms for comparison of brain connectomes.

PubMed

Milano, Marianna; Guzzi, Pietro Hiram; Tymofieva, Olga; Xu, Duan; Hess, Christofer; Veltri, Pierangelo; Cannataro, Mario

2017-06-06

Recently the study of the complex system of connections in neural systems, i.e. the connectome, has gained a central role in neurosciences. The modeling and analysis of connectomes are therefore a growing area. Here we focus on the representation of connectomes by using graph theory formalisms. Macroscopic human brain connectomes are usually derived from neuroimages; the analyzed brains are co-registered in the image domain and brought to a common anatomical space. An atlas is then applied in order to define anatomically meaningful regions that will serve as the nodes of the network - this process is referred to as parcellation. The atlas-based parcellations present some known limitations in cases of early brain development and abnormal anatomy. Consequently, it has been recently proposed to perform atlas-free random brain parcellation into nodes and align brains in the network space instead of the anatomical image space, as a way to deal with the unknown correspondences of the parcels. Such process requires modeling of the brain using graph theory and the subsequent comparison of the structure of graphs. The latter step may be modeled as a network alignment (NA) problem. In this work, we first define the problem formally, then we test six existing state of the art of network aligners on diffusion MRI-derived brain networks. We compare the performances of algorithms by assessing six topological measures. We also evaluated the robustness of algorithms to alterations of the dataset. The results confirm that NA algorithms may be applied in cases of atlas-free parcellation for a fully network-driven comparison of connectomes. The analysis shows MAGNA++ is the best global alignment algorithm. The paper presented a new analysis methodology that uses network alignment for validating atlas-free parcellation brain connectomes. The methodology has been experimented on several brain datasets.

The Application of the Weighted k-Partite Graph Problem to the Multiple Alignment for Metabolic Pathways.

PubMed

Chen, Wenbin; Hendrix, William; Samatova, Nagiza F

2017-12-01

The problem of aligning multiple metabolic pathways is one of very challenging problems in computational biology. A metabolic pathway consists of three types of entities: reactions, compounds, and enzymes. Based on similarities between enzymes, Tohsato et al. gave an algorithm for aligning multiple metabolic pathways. However, the algorithm given by Tohsato et al. neglects the similarities among reactions, compounds, enzymes, and pathway topology. How to design algorithms for the alignment problem of multiple metabolic pathways based on the similarity of reactions, compounds, and enzymes? It is a difficult computational problem. In this article, we propose an algorithm for the problem of aligning multiple metabolic pathways based on the similarities among reactions, compounds, enzymes, and pathway topology. First, we compute a weight between each pair of like entities in different input pathways based on the entities' similarity score and topological structure using Ay et al.'s methods. We then construct a weighted k-partite graph for the reactions, compounds, and enzymes. We extract a mapping between these entities by solving the maximum-weighted k-partite matching problem by applying a novel heuristic algorithm. By analyzing the alignment results of multiple pathways in different organisms, we show that the alignments found by our algorithm correctly identify common subnetworks among multiple pathways.

FPFH-based graph matching for 3D point cloud registration

NASA Astrophysics Data System (ADS)

Zhao, Jiapeng; Li, Chen; Tian, Lihua; Zhu, Jihua

2018-04-01

Correspondence detection is a vital step in point cloud registration and it can help getting a reliable initial alignment. In this paper, we put forward an advanced point feature-based graph matching algorithm to solve the initial alignment problem of rigid 3D point cloud registration with partial overlap. Specifically, Fast Point Feature Histograms are used to determine the initial possible correspondences firstly. Next, a new objective function is provided to make the graph matching more suitable for partially overlapping point cloud. The objective function is optimized by the simulated annealing algorithm for final group of correct correspondences. Finally, we present a novel set partitioning method which can transform the NP-hard optimization problem into a O(n3)-solvable one. Experiments on the Stanford and UWA public data sets indicates that our method can obtain better result in terms of both accuracy and time cost compared with other point cloud registration methods.

Algorithms for Automatic Alignment of Arrays

NASA Technical Reports Server (NTRS)

Chatterjee, Siddhartha; Gilbert, John R.; Oliker, Leonid; Schreiber, Robert; Sheffler, Thomas J.

1996-01-01

Aggregate data objects (such as arrays) are distributed across the processor memories when compiling a data-parallel language for a distributed-memory machine. The mapping determines the amount of communication needed to bring operands of parallel operations into alignment with each other. A common approach is to break the mapping into two stages: an alignment that maps all the objects to an abstract template, followed by a distribution that maps the template to the processors. This paper describes algorithms for solving the various facets of the alignment problem: axis and stride alignment, static and mobile offset alignment, and replication labeling. We show that optimal axis and stride alignment is NP-complete for general program graphs, and give a heuristic method that can explore the space of possible solutions in a number of ways. We show that some of these strategies can give better solutions than a simple greedy approach proposed earlier. We also show how local graph contractions can reduce the size of the problem significantly without changing the best solution. This allows more complex and effective heuristics to be used. We show how to model the static offset alignment problem using linear programming, and we show that loop-dependent mobile offset alignment is sometimes necessary for optimum performance. We describe an algorithm with for determining mobile alignments for objects within do loops. We also identify situations in which replicated alignment is either required by the program itself or can be used to improve performance. We describe an algorithm based on network flow that replicates objects so as to minimize the total amount of broadcast communication in replication.

Multiresolution analysis over graphs for a motor imagery based online BCI game.

PubMed

Asensio-Cubero, Javier; Gan, John Q; Palaniappan, Ramaswamy

2016-01-01

Multiresolution analysis (MRA) over graph representation of EEG data has proved to be a promising method for offline brain-computer interfacing (BCI) data analysis. For the first time we aim to prove the feasibility of the graph lifting transform in an online BCI system. Instead of developing a pointer device or a wheel-chair controller as test bed for human-machine interaction, we have designed and developed an engaging game which can be controlled by means of imaginary limb movements. Some modifications to the existing MRA analysis over graphs for BCI have also been proposed, such as the use of common spatial patterns for feature extraction at the different levels of decomposition, and sequential floating forward search as a best basis selection technique. In the online game experiment we obtained for three classes an average classification rate of 63.0% for fourteen naive subjects. The application of a best basis selection method helps significantly decrease the computing resources needed. The present study allows us to further understand and assess the benefits of the use of tailored wavelet analysis for processing motor imagery data and contributes to the further development of BCI for gaming purposes. Copyright © 2015 Elsevier Ltd. All rights reserved.

Use of Multi-Resolution Wavelet Feature Pyramids for Automatic Registration of Multi-Sensor Imagery

NASA Technical Reports Server (NTRS)

Zavorin, Ilya; LeMoigne, Jacqueline

2003-01-01

The problem of image registration, or alignment of two or more images representing the same scene or object, has to be addressed in various disciplines that employ digital imaging. In the area of remote sensing, just like in medical imaging or computer vision, it is necessary to design robust, fast and widely applicable algorithms that would allow automatic registration of images generated by various imaging platforms at the same or different times, and that would provide sub-pixel accuracy. One of the main issues that needs to be addressed when developing a registration algorithm is what type of information should be extracted from the images being registered, to be used in the search for the geometric transformation that best aligns them. The main objective of this paper is to evaluate several wavelet pyramids that may be used both for invariant feature extraction and for representing images at multiple spatial resolutions to accelerate registration. We find that the band-pass wavelets obtained from the Steerable Pyramid due to Simoncelli perform better than two types of low-pass pyramids when the images being registered have relatively small amount of nonlinear radiometric variations between them. Based on these findings, we propose a modification of a gradient-based registration algorithm that has recently been developed for medical data. We test the modified algorithm on several sets of real and synthetic satellite imagery.

Efficient Inference for Trees and Alignments: Modeling Monolingual and Bilingual Syntax with Hard and Soft Constraints and Latent Variables

ERIC Educational Resources Information Center

Smith, David Arthur

2010-01-01

Much recent work in natural language processing treats linguistic analysis as an inference problem over graphs. This development opens up useful connections between machine learning, graph theory, and linguistics. The first part of this dissertation formulates syntactic dependency parsing as a dynamic Markov random field with the novel…

Enhancing facial features by using clear facial features

NASA Astrophysics Data System (ADS)

Rofoo, Fanar Fareed Hanna

2017-09-01

The similarity of features between individuals of same ethnicity motivated the idea of this project. The idea of this project is to extract features of clear facial image and impose them on blurred facial image of same ethnic origin as an approach to enhance a blurred facial image. A database of clear images containing 30 individuals equally divided to five different ethnicities which were Arab, African, Chines, European and Indian. Software was built to perform pre-processing on images in order to align the features of clear and blurred images. And the idea was to extract features of clear facial image or template built from clear facial images using wavelet transformation to impose them on blurred image by using reverse wavelet. The results of this approach did not come well as all the features did not align together as in most cases the eyes were aligned but the nose or mouth were not aligned. Then we decided in the next approach to deal with features separately but in the result in some cases a blocky effect was present on features due to not having close matching features. In general the available small database did not help to achieve the goal results, because of the number of available individuals. The color information and features similarity could be more investigated to achieve better results by having larger database as well as improving the process of enhancement by the availability of closer matches in each ethnicity.

Measuring Primary Students' Graph Interpretation Skills via a Performance Assessment: A Case Study in Instrument Development

ERIC Educational Resources Information Center

Peterman, Karen; Cranston, Kayla A.; Pryor, Marie; Kermish-Allen, Ruth

2015-01-01

This case study was conducted within the context of a place-based education project that was implemented with primary school students in the USA. The authors and participating teachers created a performance assessment of standards-aligned tasks to examine 6-10-year-old students' graph interpretation skills as part of an exploratory research…

sc-PDB-Frag: a database of protein-ligand interaction patterns for Bioisosteric replacements.

PubMed

Desaphy, Jérémy; Rognan, Didier

2014-07-28

Bioisosteric replacement plays an important role in medicinal chemistry by keeping the biological activity of a molecule while changing either its core scaffold or substituents, thereby facilitating lead optimization and patenting. Bioisosteres are classically chosen in order to keep the main pharmacophoric moieties of the substructure to replace. However, notably when changing a scaffold, no attention is usually paid as whether all atoms of the reference scaffold are equally important for binding to the desired target. We herewith propose a novel database for bioisosteric replacement (scPDBFrag), capitalizing on our recently published structure-based approach to scaffold hopping, focusing on interaction pattern graphs. Protein-bound ligands are first fragmented and the interaction of the corresponding fragments with their protein environment computed-on-the-fly. Using an in-house developed graph alignment tool, interaction patterns graphs can be compared, aligned, and sorted by decreasing similarity to any reference. In the herein presented sc-PDB-Frag database ( http://bioinfo-pharma.u-strasbg.fr/scPDBFrag ), fragments, interaction patterns, alignments, and pairwise similarity scores have been extracted from the sc-PDB database of 8077 druggable protein-ligand complexes and further stored in a relational database. We herewith present the database, its Web implementation, and procedures for identifying true bioisosteric replacements based on conserved interaction patterns.

Chemometrics-assisted spectrophotometric method for simultaneous determination of Pb²⁺ and Cu²⁺ ions in different foodstuffs, soil and water samples using 2-benzylspiro [isoindoline-1,5'-oxazolidine]-2',3,4'-trione using continuous wavelet transformation and partial least squares - calculation of pKf of complexes with rank annihilation factor analysis.

PubMed

Abbasi Tarighat, Maryam; Nabavi, Masoume; Mohammadizadeh, Mohammad Reza

2015-06-15

A new multi-component analysis method based on zero-crossing point-continuous wavelet transformation (CWT) was developed for simultaneous spectrophotometric determination of Cu(2+) and Pb(2+) ions based on the complex formation with 2-benzyl espiro[isoindoline-1,5 oxasolidine]-2,3,4 trione (BSIIOT). The absorption spectra were evaluated with respect to synthetic ligand concentration, time of complexation and pH. Therefore according the absorbance values, 0.015 mmol L(-1) BSIIOT, 10 min after mixing and pH 8.0 were used as optimum values. The complex formation between BSIIOT ligand and the cations Cu(2+) and Pb(2+) by application of rank annihilation factor analysis (RAFA) were investigated. Daubechies-4 (db4), discrete Meyer (dmey), Morlet (morl) and Symlet-8 (sym8) continuous wavelet transforms for signal treatments were found to be suitable among the wavelet families. The applicability of new synthetic ligand and selected mother wavelets were used for the simultaneous determination of strongly overlapped spectra of species without using any pre-chemical treatment. Therefore, CWT signals together with zero crossing technique were directly applied to the overlapping absorption spectra of Cu(2+) and Pb(2+). The calibration graphs for estimation of Pb(2+) and Cu (2+)were obtained by measuring the CWT amplitudes at zero crossing points for Cu(2+) and Pb(2+) at the wavelet domain, respectively. The proposed method was validated by simultaneous determination of Cu(2+) and Pb(2+) ions in red beans, walnut, rice, tea and soil samples. The obtained results of samples with proposed method have been compared with those predicted by partial least squares (PLS) and flame atomic absorption spectrophotometry (FAAS). Copyright © 2015 Elsevier B.V. All rights reserved.

Reflecting on Graphs: Attributes of Graph Choice and Construction Practices in Biology

PubMed Central

Angra, Aakanksha; Gardner, Stephanie M.

2017-01-01

Undergraduate biology education reform aims to engage students in scientific practices such as experimental design, experimentation, and data analysis and communication. Graphs are ubiquitous in the biological sciences, and creating effective graphical representations involves quantitative and disciplinary concepts and skills. Past studies document student difficulties with graphing within the contexts of classroom or national assessments without evaluating student reasoning. Operating under the metarepresentational competence framework, we conducted think-aloud interviews to reveal differences in reasoning and graph quality between undergraduate biology students, graduate students, and professors in a pen-and-paper graphing task. All professors planned and thought about data before graph construction. When reflecting on their graphs, professors and graduate students focused on the function of graphs and experimental design, while most undergraduate students relied on intuition and data provided in the task. Most undergraduate students meticulously plotted all data with scaled axes, while professors and some graduate students transformed the data, aligned the graph with the research question, and reflected on statistics and sample size. Differences in reasoning and approaches taken in graph choice and construction corroborate and extend previous findings and provide rich targets for undergraduate and graduate instruction. PMID:28821538

Graph Drawing Aesthetics-Created by Users, Not Algorithms.

PubMed

Purchase, H C; Pilcher, C; Plimmer, B

2012-01-01

Prior empirical work on layout aesthetics for graph drawing algorithms has concentrated on the interpretation of existing graph drawings. We report on experiments which focus on the creation and layout of graph drawings: participants were asked to draw graphs based on adjacency lists, and to lay them out "nicely." Two interaction methods were used for creating the drawings: a sketch interface which allows for easy, natural hand movements, and a formal point-and-click interface similar to a typical graph editing system. We find, in common with many other studies, that removing edge crossings is the most significant aesthetic, but also discover that aligning nodes and edges to an underlying grid is important. We observe that the aesthetics favored by participants during creation of a graph drawing are often not evident in the final product and that the participants did not make a clear distinction between the processes of creation and layout. Our results suggest that graph drawing systems should integrate automatic layout with the user's manual editing process, and provide facilities to support grid-based graph creation.

``Models'' CAVEAT EMPTOR!!!: ``Toy Models Too-Often Yield Toy-Results''!!!: Statistics, Polls, Politics, Economics, Elections!!!: GRAPH/Network-Physics: ``Equal-Distribution for All'' TRUMP-ED BEC ``Winner-Take-All'' ``Doctor Livingston I Presume?''

NASA Astrophysics Data System (ADS)

Preibus-Norquist, R. N. C.-Grover; Bush-Romney, G. W.-Willard-Mitt; Dimon, J. P.; Adelson-Koch, Sheldon-Charles-David-Sheldon; Krugman-Axelrod, Paul-David; Siegel, Edward Carl-Ludwig; D. N. C./O. F. P./''47''%/50% Collaboration; R. N. C./G. O. P./''53''%/49% Collaboration; Nyt/Wp/Cnn/Msnbc/Pbs/Npr/Ft Collaboration; Ftn/Fnc/Fox/Wsj/Fbn Collaboration; Lb/Jpmc/Bs/Boa/Ml/Wamu/S&P/Fitch/Moodys/Nmis Collaboration

2013-03-01

``Models''? CAVEAT EMPTOR!!!: ``Toy Models Too-Often Yield Toy-Results''!!!: Goldenfeld[``The Role of Models in Physics'', in Lects.on Phase-Transitions & R.-G.(92)-p.32-33!!!]: statistics(Silver{[NYTimes; Bensinger, ``Math-Geerks Clearly-Defeated Pundits'', LATimes, (11/9/12)])}, polls, politics, economics, elections!!!: GRAPH/network/net/...-PHYSICS Barabasi-Albert[RMP (02)] (r,t)-space VERSUS(???) [Where's the Inverse/ Dual/Integral-Transform???] (Benjamin)Franklin(1795)-Fourier(1795; 1897;1822)-Laplace(1850)-Mellin (1902) Brillouin(1922)-...(k,)-space, {Hubbard [The World According to Wavelets,Peters (96)-p.14!!!/p.246: refs.-F2!!!]},and then (2) Albert-Barabasi[]Bose-Einstein quantum-statistics(BEQS) Bose-Einstein CONDENSATION (BEC) versus Bianconi[pvt.-comm.; arXiv:cond-mat/0204506; ...] -Barabasi [???] Fermi-Dirac

Graph-Based Object Class Discovery

NASA Astrophysics Data System (ADS)

Xia, Shengping; Hancock, Edwin R.

We are interested in the problem of discovering the set of object classes present in a database of images using a weakly supervised graph-based framework. Rather than making use of the ”Bag-of-Features (BoF)” approach widely used in current work on object recognition, we represent each image by a graph using a group of selected local invariant features. Using local feature matching and iterative Procrustes alignment, we perform graph matching and compute a similarity measure. Borrowing the idea of query expansion , we develop a similarity propagation based graph clustering (SPGC) method. Using this method class specific clusters of the graphs can be obtained. Such a cluster can be generally represented by using a higher level graph model whose vertices are the clustered graphs, and the edge weights are determined by the pairwise similarity measure. Experiments are performed on a dataset, in which the number of images increases from 1 to 50K and the number of objects increases from 1 to over 500. Some objects have been discovered with total recall and a precision 1 in a single cluster.

Global universe anisotropy probed by the alignment of structures in the cosmic microwave background.

PubMed

Wiaux, Y; Vielva, P; Martínez-González, E; Vandergheynst, P

2006-04-21

We question the global universe isotropy by probing the alignment of local structures in the cosmic microwave background (CMB) radiation. The original method proposed relies on a steerable wavelet decomposition of the CMB signal on the sphere. The analysis of the first-year Wilkinson Microwave Anisotropy Probe data identifies a mean preferred plane with a normal direction close to the CMB dipole axis, and a mean preferred direction in this plane, very close to the ecliptic poles axis. Previous statistical anisotropy results are thereby synthesized, but further analyses are still required to establish their origin.

Applied Graph-Mining Algorithms to Study Biomolecular Interaction Networks

PubMed Central

2014-01-01

Protein-protein interaction (PPI) networks carry vital information on the organization of molecular interactions in cellular systems. The identification of functionally relevant modules in PPI networks is one of the most important applications of biological network analysis. Computational analysis is becoming an indispensable tool to understand large-scale biomolecular interaction networks. Several types of computational methods have been developed and employed for the analysis of PPI networks. Of these computational methods, graph comparison and module detection are the two most commonly used strategies. This review summarizes current literature on graph kernel and graph alignment methods for graph comparison strategies, as well as module detection approaches including seed-and-extend, hierarchical clustering, optimization-based, probabilistic, and frequent subgraph methods. Herein, we provide a comprehensive review of the major algorithms employed under each theme, including our recently published frequent subgraph method, for detecting functional modules commonly shared across multiple cancer PPI networks. PMID:24800226

On the response of superpressure balloons to displacements from equilibrium density level

NASA Technical Reports Server (NTRS)

Levanon, N.; Kushnir, Y.

1976-01-01

The response of a superpressure balloon to an initial displacement from its constant-density floating level is examined. An approximate solution is obtained to the governing vertical equation of motion for constant-density superpressure balloons. This solution is used to filter out neutrally buoyant oscillations in balloon records despite the nonlinear behavior of the balloon. The graph depicting the pressure data after deconvolution between the raw pressure data and the normalized balloon wavelet shows clearly the strong filtering-out of the neutral buoyancy oscillations.

L-GRAAL: Lagrangian graphlet-based network aligner.

PubMed

Malod-Dognin, Noël; Pržulj, Nataša

2015-07-01

Discovering and understanding patterns in networks of protein-protein interactions (PPIs) is a central problem in systems biology. Alignments between these networks aid functional understanding as they uncover important information, such as evolutionary conserved pathways, protein complexes and functional orthologs. A few methods have been proposed for global PPI network alignments, but because of NP-completeness of underlying sub-graph isomorphism problem, producing topologically and biologically accurate alignments remains a challenge. We introduce a novel global network alignment tool, Lagrangian GRAphlet-based ALigner (L-GRAAL), which directly optimizes both the protein and the interaction functional conservations, using a novel alignment search heuristic based on integer programming and Lagrangian relaxation. We compare L-GRAAL with the state-of-the-art network aligners on the largest available PPI networks from BioGRID and observe that L-GRAAL uncovers the largest common sub-graphs between the networks, as measured by edge-correctness and symmetric sub-structures scores, which allow transferring more functional information across networks. We assess the biological quality of the protein mappings using the semantic similarity of their Gene Ontology annotations and observe that L-GRAAL best uncovers functionally conserved proteins. Furthermore, we introduce for the first time a measure of the semantic similarity of the mapped interactions and show that L-GRAAL also uncovers best functionally conserved interactions. In addition, we illustrate on the PPI networks of baker's yeast and human the ability of L-GRAAL to predict new PPIs. Finally, L-GRAAL's results are the first to show that topological information is more important than sequence information for uncovering functionally conserved interactions. L-GRAAL is coded in C++. Software is available at: http://bio-nets.doc.ic.ac.uk/L-GRAAL/. n.malod-dognin@imperial.ac.uk Supplementary data are available at Bioinformatics online. © The Author 2015. Published by Oxford University Press.

The application of wavelet denoising in material discrimination system

NASA Astrophysics Data System (ADS)

Fu, Kenneth; Ranta, Dale; Guest, Clark; Das, Pankaj

2010-01-01

Recently, the need for cargo inspection imaging systems to provide a material discrimination function has become desirable. This is done by scanning the cargo container with x-rays at two different energy levels. The ratio of attenuations of the two energy scans can provide information on the composition of the material. However, with the statistical error from noise, the accuracy of such systems can be low. Because the moving source emits two energies of x-rays alternately, images from the two scans will not be identical. That means edges of objects in the two images are not perfectly aligned. Moreover, digitization creates blurry-edge artifacts. Different energy x-rays produce different edge spread functions. Those combined effects contribute to a source of false classification namely, the "edge effect." Other types of false classification are caused by noise, mainly Poisson noise associated with photons. The Poisson noise in xray images can be dealt with using either a Wiener filter or a wavelet shrinkage denoising approach. In this paper, we propose a method that uses the wavelet shrinkage denoising approach to enhance the performance of the material identification system. Test results show that this wavelet-based approach has improved performance in object detection and eliminating false positives due to the edge effects.

Content based image retrieval for matching images of improvised explosive devices in which snake initialization is viewed as an inverse problem

NASA Astrophysics Data System (ADS)

Acton, Scott T.; Gilliam, Andrew D.; Li, Bing; Rossi, Adam

2008-02-01

Improvised explosive devices (IEDs) are common and lethal instruments of terrorism, and linking a terrorist entity to a specific device remains a difficult task. In the effort to identify persons associated with a given IED, we have implemented a specialized content based image retrieval system to search and classify IED imagery. The system makes two contributions to the art. First, we introduce a shape-based matching technique exploiting shape, color, and texture (wavelet) information, based on novel vector field convolution active contours and a novel active contour initialization method which treats coarse segmentation as an inverse problem. Second, we introduce a unique graph theoretic approach to match annotated printed circuit board images for which no schematic or connectivity information is available. The shape-based image retrieval method, in conjunction with the graph theoretic tool, provides an efficacious system for matching IED images. For circuit imagery, the basic retrieval mechanism has a precision of 82.1% and the graph based method has a precision of 98.1%. As of the fall of 2007, the working system has processed over 400,000 case images.

Wavelet-based compression of M-FISH images.

PubMed

Hua, Jianping; Xiong, Zixiang; Wu, Qiang; Castleman, Kenneth R

2005-05-01

Multiplex fluorescence in situ hybridization (M-FISH) is a recently developed technology that enables multi-color chromosome karyotyping for molecular cytogenetic analysis. Each M-FISH image set consists of a number of aligned images of the same chromosome specimen captured at different optical wavelength. This paper presents embedded M-FISH image coding (EMIC), where the foreground objects/chromosomes and the background objects/images are coded separately. We first apply critically sampled integer wavelet transforms to both the foreground and the background. We then use object-based bit-plane coding to compress each object and generate separate embedded bitstreams that allow continuous lossy-to-lossless compression of the foreground and the background. For efficient arithmetic coding of bit planes, we propose a method of designing an optimal context model that specifically exploits the statistical characteristics of M-FISH images in the wavelet domain. Our experiments show that EMIC achieves nearly twice as much compression as Lempel-Ziv-Welch coding. EMIC also performs much better than JPEG-LS and JPEG-2000 for lossless coding. The lossy performance of EMIC is significantly better than that of coding each M-FISH image with JPEG-2000.

Strawberry: Fast and accurate genome-guided transcript reconstruction and quantification from RNA-Seq.

PubMed

Liu, Ruolin; Dickerson, Julie

2017-11-01

We propose a novel method and software tool, Strawberry, for transcript reconstruction and quantification from RNA-Seq data under the guidance of genome alignment and independent of gene annotation. Strawberry consists of two modules: assembly and quantification. The novelty of Strawberry is that the two modules use different optimization frameworks but utilize the same data graph structure, which allows a highly efficient, expandable and accurate algorithm for dealing large data. The assembly module parses aligned reads into splicing graphs, and uses network flow algorithms to select the most likely transcripts. The quantification module uses a latent class model to assign read counts from the nodes of splicing graphs to transcripts. Strawberry simultaneously estimates the transcript abundances and corrects for sequencing bias through an EM algorithm. Based on simulations, Strawberry outperforms Cufflinks and StringTie in terms of both assembly and quantification accuracies. Under the evaluation of a real data set, the estimated transcript expression by Strawberry has the highest correlation with Nanostring probe counts, an independent experiment measure for transcript expression. Strawberry is written in C++14, and is available as open source software at https://github.com/ruolin/strawberry under the MIT license.

Accurate multiple sequence-structure alignment of RNA sequences using combinatorial optimization.

PubMed

Bauer, Markus; Klau, Gunnar W; Reinert, Knut

2007-07-27

The discovery of functional non-coding RNA sequences has led to an increasing interest in algorithms related to RNA analysis. Traditional sequence alignment algorithms, however, fail at computing reliable alignments of low-homology RNA sequences. The spatial conformation of RNA sequences largely determines their function, and therefore RNA alignment algorithms have to take structural information into account. We present a graph-based representation for sequence-structure alignments, which we model as an integer linear program (ILP). We sketch how we compute an optimal or near-optimal solution to the ILP using methods from combinatorial optimization, and present results on a recently published benchmark set for RNA alignments. The implementation of our algorithm yields better alignments in terms of two published scores than the other programs that we tested: This is especially the case with an increasing number of input sequences. Our program LARA is freely available for academic purposes from http://www.planet-lisa.net.

Graphs in kinematics—a need for adherence to principles of algebraic functions

NASA Astrophysics Data System (ADS)

Sokolowski, Andrzej

2017-11-01

Graphs in physics are central to the analysis of phenomena and to learning about a system’s behavior. The ways students handle graphs are frequently researched. Students’ misconceptions are highlighted, and methods of improvement suggested. While kinematics graphs are to represent a real motion, they are also algebraic entities that must satisfy conditions for being algebraic functions. To be algebraic functions, they must pass certain tests before they can be used to infer more about motion. A preliminary survey of some physics resources has revealed that little attention is paid to verifying if the position, velocity and acceleration versus time graphs, that are to depict real motion, satisfy the most critical condition for being an algebraic function; the vertical line test. The lack of attention to this adherence shows as vertical segments in piecewise graphs. Such graphs generate unrealistic interpretations and may confuse students. A group of 25 college physics students was provided with such a graph and asked to analyse its adherence to reality. The majority of the students (N  =  16, 64%) questioned the graph’s validity. It is inferred that such graphs might not only jeopardize the function principles studied in mathematics but also undermine the purpose of studying these principles. The aim of this study was to bring this idea forth and suggest a better alignment of physics and mathematics methods.

A wavelet-based approach for a continuous analysis of phonovibrograms.

PubMed

Unger, Jakob; Meyer, Tobias; Doellinger, Michael; Hecker, Dietmar J; Schick, Bernhard; Lohscheller, Joerg

2012-01-01

Recently, endoscopic high-speed laryngoscopy has been established for commercial use and constitutes a state-of-the-art technique to examine vocal fold dynamics. Despite overcoming many limitations of commonly applied stroboscopy it has not gained widespread clinical application, yet. A major drawback is a missing methodology of extracting valuable features to support visual assessment or computer-aided diagnosis. In this paper a compact and descriptive feature set is presented. The feature extraction routines are based on two-dimensional color graphs called phonovibrograms (PVG). These graphs contain the full spatio-temporal pattern of vocal fold dynamics and are therefore suited to derive features that comprehensively describe the vibration pattern of vocal folds. Within our approach, clinically relevant features such as glottal closure type, symmetry and periodicity are quantified in a set of 10 descriptive features. The suitability for classification tasks is shown using a clinical data set comprising 50 healthy and 50 paralytic subjects. A classification accuracy of 93.2% has been achieved.

Tree decomposition based fast search of RNA structures including pseudoknots in genomes.

PubMed

Song, Yinglei; Liu, Chunmei; Malmberg, Russell; Pan, Fangfang; Cai, Liming

2005-01-01

Searching genomes for RNA secondary structure with computational methods has become an important approach to the annotation of non-coding RNAs. However, due to the lack of efficient algorithms for accurate RNA structure-sequence alignment, computer programs capable of fast and effectively searching genomes for RNA secondary structures have not been available. In this paper, a novel RNA structure profiling model is introduced based on the notion of a conformational graph to specify the consensus structure of an RNA family. Tree decomposition yields a small tree width t for such conformation graphs (e.g., t = 2 for stem loops and only a slight increase for pseudo-knots). Within this modelling framework, the optimal alignment of a sequence to the structure model corresponds to finding a maximum valued isomorphic subgraph and consequently can be accomplished through dynamic programming on the tree decomposition of the conformational graph in time O(k(t)N(2)), where k is a small parameter; and N is the size of the projiled RNA structure. Experiments show that the application of the alignment algorithm to search in genomes yields the same search accuracy as methods based on a Covariance model with a significant reduction in computation time. In particular; very accurate searches of tmRNAs in bacteria genomes and of telomerase RNAs in yeast genomes can be accomplished in days, as opposed to months required by other methods. The tree decomposition based searching tool is free upon request and can be downloaded at our site h t t p ://w.uga.edu/RNA-informatics/software/index.php.

Reflecting on Graphs: Attributes of Graph Choice and Construction Practices in Biology.

PubMed

Angra, Aakanksha; Gardner, Stephanie M

2017-01-01

Undergraduate biology education reform aims to engage students in scientific practices such as experimental design, experimentation, and data analysis and communication. Graphs are ubiquitous in the biological sciences, and creating effective graphical representations involves quantitative and disciplinary concepts and skills. Past studies document student difficulties with graphing within the contexts of classroom or national assessments without evaluating student reasoning. Operating under the metarepresentational competence framework, we conducted think-aloud interviews to reveal differences in reasoning and graph quality between undergraduate biology students, graduate students, and professors in a pen-and-paper graphing task. All professors planned and thought about data before graph construction. When reflecting on their graphs, professors and graduate students focused on the function of graphs and experimental design, while most undergraduate students relied on intuition and data provided in the task. Most undergraduate students meticulously plotted all data with scaled axes, while professors and some graduate students transformed the data, aligned the graph with the research question, and reflected on statistics and sample size. Differences in reasoning and approaches taken in graph choice and construction corroborate and extend previous findings and provide rich targets for undergraduate and graduate instruction. © 2017 A. Angra and S. M. Gardner. CBE—Life Sciences Education © 2017 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

Non-parametric transient classification using adaptive wavelets

NASA Astrophysics Data System (ADS)

Varughese, Melvin M.; von Sachs, Rainer; Stephanou, Michael; Bassett, Bruce A.

2015-11-01

Classifying transients based on multiband light curves is a challenging but crucial problem in the era of GAIA and Large Synoptic Sky Telescope since the sheer volume of transients will make spectroscopic classification unfeasible. We present a non-parametric classifier that predicts the transient's class given training data. It implements two novel components: the use of the BAGIDIS wavelet methodology - a characterization of functional data using hierarchical wavelet coefficients - as well as the introduction of a ranked probability classifier on the wavelet coefficients that handles both the heteroscedasticity of the data in addition to the potential non-representativity of the training set. The classifier is simple to implement while a major advantage of the BAGIDIS wavelets is that they are translation invariant. Hence, BAGIDIS does not need the light curves to be aligned to extract features. Further, BAGIDIS is non-parametric so it can be used effectively in blind searches for new objects. We demonstrate the effectiveness of our classifier against the Supernova Photometric Classification Challenge to correctly classify supernova light curves as Type Ia or non-Ia. We train our classifier on the spectroscopically confirmed subsample (which is not representative) and show that it works well for supernova with observed light-curve time spans greater than 100 d (roughly 55 per cent of the data set). For such data, we obtain a Ia efficiency of 80.5 per cent and a purity of 82.4 per cent, yielding a highly competitive challenge score of 0.49. This indicates that our `model-blind' approach may be particularly suitable for the general classification of astronomical transients in the era of large synoptic sky surveys.

eHUGS: Enhanced Hierarchical Unbiased Graph Shrinkage for Efficient Groupwise Registration

PubMed Central

Wu, Guorong; Peng, Xuewei; Ying, Shihui; Wang, Qian; Yap, Pew-Thian; Shen, Dan; Shen, Dinggang

2016-01-01

Effective and efficient spatial normalization of a large population of brain images is critical for many clinical and research studies, but it is technically very challenging. A commonly used approach is to choose a certain image as the template and then align all other images in the population to this template by applying pairwise registration. To avoid the potential bias induced by the inappropriate template selection, groupwise registration methods have been proposed to simultaneously register all images to a latent common space. However, current groupwise registration methods do not make full use of image distribution information for more accurate registration. In this paper, we present a novel groupwise registration method that harnesses the image distribution information by capturing the image distribution manifold using a hierarchical graph with its nodes representing the individual images. More specifically, a low-level graph describes the image distribution in each subgroup, and a high-level graph encodes the relationship between representative images of subgroups. Given the graph representation, we can register all images to the common space by dynamically shrinking the graph on the image manifold. The topology of the entire image distribution is always maintained during graph shrinkage. Evaluations on two datasets, one for 80 elderly individuals and one for 285 infants, indicate that our method can yield promising results. PMID:26800361

Image Registration for Stability Testing of MEMS

NASA Technical Reports Server (NTRS)

Memarsadeghi, Nargess; LeMoigne, Jacqueline; Blake, Peter N.; Morey, Peter A.; Landsman, Wayne B.; Chambers, Victor J.; Moseley, Samuel H.

2011-01-01

Image registration, or alignment of two or more images covering the same scenes or objects, is of great interest in many disciplines such as remote sensing, medical imaging. astronomy, and computer vision. In this paper, we introduce a new application of image registration algorithms. We demonstrate how through a wavelet based image registration algorithm, engineers can evaluate stability of Micro-Electro-Mechanical Systems (MEMS). In particular, we applied image registration algorithms to assess alignment stability of the MicroShutters Subsystem (MSS) of the Near Infrared Spectrograph (NIRSpec) instrument of the James Webb Space Telescope (JWST). This work introduces a new methodology for evaluating stability of MEMS devices to engineers as well as a new application of image registration algorithms to computer scientists.

Graph Matching: Relax at Your Own Risk.

PubMed

Lyzinski, Vince; Fishkind, Donniell E; Fiori, Marcelo; Vogelstein, Joshua T; Priebe, Carey E; Sapiro, Guillermo

2016-01-01

Graph matching-aligning a pair of graphs to minimize their edge disagreements-has received wide-spread attention from both theoretical and applied communities over the past several decades, including combinatorics, computer vision, and connectomics. Its attention can be partially attributed to its computational difficulty. Although many heuristics have previously been proposed in the literature to approximately solve graph matching, very few have any theoretical support for their performance. A common technique is to relax the discrete problem to a continuous problem, therefore enabling practitioners to bring gradient-descent-type algorithms to bear. We prove that an indefinite relaxation (when solved exactly) almost always discovers the optimal permutation, while a common convex relaxation almost always fails to discover the optimal permutation. These theoretical results suggest that initializing the indefinite algorithm with the convex optimum might yield improved practical performance. Indeed, experimental results illuminate and corroborate these theoretical findings, demonstrating that excellent results are achieved in both benchmark and real data problems by amalgamating the two approaches.

Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions.

PubMed

Krissinel, E; Henrick, K

2004-12-01

The present paper describes the SSM algorithm of protein structure comparison in three dimensions, which includes an original procedure of matching graphs built on the protein's secondary-structure elements, followed by an iterative three-dimensional alignment of protein backbone Calpha atoms. The SSM results are compared with those obtained from other protein comparison servers, and the advantages and disadvantages of different scores that are used for structure recognition are discussed. A new score, balancing the r.m.s.d. and alignment length Nalign, is proposed. It is found that different servers agree reasonably well on the new score, while showing considerable differences in r.m.s.d. and Nalign.

YAHA: fast and flexible long-read alignment with optimal breakpoint detection.

PubMed

Faust, Gregory G; Hall, Ira M

2012-10-01

With improved short-read assembly algorithms and the recent development of long-read sequencers, split mapping will soon be the preferred method for structural variant (SV) detection. Yet, current alignment tools are not well suited for this. We present YAHA, a fast and flexible hash-based aligner. YAHA is as fast and accurate as BWA-SW at finding the single best alignment per query and is dramatically faster and more sensitive than both SSAHA2 and MegaBLAST at finding all possible alignments. Unlike other aligners that report all, or one, alignment per query, or that use simple heuristics to select alignments, YAHA uses a directed acyclic graph to find the optimal set of alignments that cover a query using a biologically relevant breakpoint penalty. YAHA can also report multiple mappings per defined segment of the query. We show that YAHA detects more breakpoints in less time than BWA-SW across all SV classes, and especially excels at complex SVs comprising multiple breakpoints. YAHA is currently supported on 64-bit Linux systems. Binaries and sample data are freely available for download from http://faculty.virginia.edu/irahall/YAHA. imh4y@virginia.edu.

Quantification of three-dimensional cell-mediated collagen remodeling using graph theory.

PubMed

Bilgin, Cemal Cagatay; Lund, Amanda W; Can, Ali; Plopper, George E; Yener, Bülent

2010-09-30

Cell cooperation is a critical event during tissue development. We present the first precise metrics to quantify the interaction between mesenchymal stem cells (MSCs) and extra cellular matrix (ECM). In particular, we describe cooperative collagen alignment process with respect to the spatio-temporal organization and function of mesenchymal stem cells in three dimensions. We defined two precise metrics: Collagen Alignment Index and Cell Dissatisfaction Level, for quantitatively tracking type I collagen and fibrillogenesis remodeling by mesenchymal stem cells over time. Computation of these metrics was based on graph theory and vector calculus. The cells and their three dimensional type I collagen microenvironment were modeled by three dimensional cell-graphs and collagen fiber organization was calculated from gradient vectors. With the enhancement of mesenchymal stem cell differentiation, acceleration through different phases was quantitatively demonstrated. The phases were clustered in a statistically significant manner based on collagen organization, with late phases of remodeling by untreated cells clustering strongly with early phases of remodeling by differentiating cells. The experiments were repeated three times to conclude that the metrics could successfully identify critical phases of collagen remodeling that were dependent upon cooperativity within the cell population. Definition of early metrics that are able to predict long-term functionality by linking engineered tissue structure to function is an important step toward optimizing biomaterials for the purposes of regenerative medicine.

Multi-modal classification of neurodegenerative disease by progressive graph-based transductive learning

PubMed Central

Wang, Zhengxia; Zhu, Xiaofeng; Adeli, Ehsan; Zhu, Yingying; Nie, Feiping; Munsell, Brent

2018-01-01

Graph-based transductive learning (GTL) is a powerful machine learning technique that is used when sufficient training data is not available. In particular, conventional GTL approaches first construct a fixed inter-subject relation graph that is based on similarities in voxel intensity values in the feature domain, which can then be used to propagate the known phenotype data (i.e., clinical scores and labels) from the training data to the testing data in the label domain. However, this type of graph is exclusively learned in the feature domain, and primarily due to outliers in the observed features, may not be optimal for label propagation in the label domain. To address this limitation, a progressive GTL (pGTL) method is proposed that gradually finds an intrinsic data representation that more accurately aligns imaging features with the phenotype data. In general, optimal feature-to-phenotype alignment is achieved using an iterative approach that: (1) refines inter-subject relationships observed in the feature domain by using the learned intrinsic data representation in the label domain, (2) updates the intrinsic data representation from the refined inter-subject relationships, and (3) verifies the intrinsic data representation on the training data to guarantee an optimal classification when applied to testing data. Additionally, the iterative approach is extended to multi-modal imaging data to further improve pGTL classification accuracy. Using Alzheimer’s disease and Parkinson’s disease study data, the classification accuracy of the proposed pGTL method is compared to several state-of-the-art classification methods, and the results show pGTL can more accurately identify subjects, even at different progression stages, in these two study data sets. PMID:28551556

A graph kernel approach for alignment-free domain-peptide interaction prediction with an application to human SH3 domains.

PubMed

Kundu, Kousik; Costa, Fabrizio; Backofen, Rolf

2013-07-01

State-of-the-art experimental data for determining binding specificities of peptide recognition modules (PRMs) is obtained by high-throughput approaches like peptide arrays. Most prediction tools applicable to this kind of data are based on an initial multiple alignment of the peptide ligands. Building an initial alignment can be error-prone, especially in the case of the proline-rich peptides bound by the SH3 domains. Here, we present a machine-learning approach based on an efficient graph-kernel technique to predict the specificity of a large set of 70 human SH3 domains, which are an important class of PRMs. The graph-kernel strategy allows us to (i) integrate several types of physico-chemical information for each amino acid, (ii) consider high-order correlations between these features and (iii) eliminate the need for an initial peptide alignment. We build specialized models for each human SH3 domain and achieve competitive predictive performance of 0.73 area under precision-recall curve, compared with 0.27 area under precision-recall curve for state-of-the-art methods based on position weight matrices. We show that better models can be obtained when we use information on the noninteracting peptides (negative examples), which is currently not used by the state-of-the art approaches based on position weight matrices. To this end, we analyze two strategies to identify subsets of high confidence negative data. The techniques introduced here are more general and hence can also be used for any other protein domains, which interact with short peptides (i.e. other PRMs). The program with the predictive models can be found at http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/SH3PepInt.tar.gz. We also provide a genome-wide prediction for all 70 human SH3 domains, which can be found under http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/Genome-Wide-Predictions.tar.gz. Supplementary data are available at Bioinformatics online.

A graph kernel approach for alignment-free domain–peptide interaction prediction with an application to human SH3 domains

PubMed Central

Kundu, Kousik; Costa, Fabrizio; Backofen, Rolf

2013-01-01

Motivation: State-of-the-art experimental data for determining binding specificities of peptide recognition modules (PRMs) is obtained by high-throughput approaches like peptide arrays. Most prediction tools applicable to this kind of data are based on an initial multiple alignment of the peptide ligands. Building an initial alignment can be error-prone, especially in the case of the proline-rich peptides bound by the SH3 domains. Results: Here, we present a machine-learning approach based on an efficient graph-kernel technique to predict the specificity of a large set of 70 human SH3 domains, which are an important class of PRMs. The graph-kernel strategy allows us to (i) integrate several types of physico-chemical information for each amino acid, (ii) consider high-order correlations between these features and (iii) eliminate the need for an initial peptide alignment. We build specialized models for each human SH3 domain and achieve competitive predictive performance of 0.73 area under precision-recall curve, compared with 0.27 area under precision-recall curve for state-of-the-art methods based on position weight matrices. We show that better models can be obtained when we use information on the noninteracting peptides (negative examples), which is currently not used by the state-of-the art approaches based on position weight matrices. To this end, we analyze two strategies to identify subsets of high confidence negative data. The techniques introduced here are more general and hence can also be used for any other protein domains, which interact with short peptides (i.e. other PRMs). Availability: The program with the predictive models can be found at http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/SH3PepInt.tar.gz. We also provide a genome-wide prediction for all 70 human SH3 domains, which can be found under http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/Genome-Wide-Predictions.tar.gz. Contact: backofen@informatik.uni-freiburg.de Supplementary information: Supplementary data are available at Bioinformatics online. PMID:23813002

NetCoffee: a fast and accurate global alignment approach to identify functionally conserved proteins in multiple networks.

PubMed

Hu, Jialu; Kehr, Birte; Reinert, Knut

2014-02-15

Owing to recent advancements in high-throughput technologies, protein-protein interaction networks of more and more species become available in public databases. The question of how to identify functionally conserved proteins across species attracts a lot of attention in computational biology. Network alignments provide a systematic way to solve this problem. However, most existing alignment tools encounter limitations in tackling this problem. Therefore, the demand for faster and more efficient alignment tools is growing. We present a fast and accurate algorithm, NetCoffee, which allows to find a global alignment of multiple protein-protein interaction networks. NetCoffee searches for a global alignment by maximizing a target function using simulated annealing on a set of weighted bipartite graphs that are constructed using a triplet approach similar to T-Coffee. To assess its performance, NetCoffee was applied to four real datasets. Our results suggest that NetCoffee remedies several limitations of previous algorithms, outperforms all existing alignment tools in terms of speed and nevertheless identifies biologically meaningful alignments. The source code and data are freely available for download under the GNU GPL v3 license at https://code.google.com/p/netcoffee/.

Graph-based similarity concepts in virtual screening.

PubMed

Hutter, Michael C

2011-03-01

Applying similarity for finding new promising compounds is a key issue in drug design. Conversely, quantifying similarity between molecules has remained a difficult task despite the numerous approaches. Here, some general aspects along with recent developments regarding similarity criteria are collected. For the purpose of virtual screening, the compounds have to be encoded into a computer-readable format that permits a comparison, according to given similarity criteria, comprising the use of the 3D structure, fingerprints, graph-based and alignment-based approaches. Whereas finding the most common substructures is the most obvious method, more recent approaches take into account chemical modifications that appear throughout existing drugs, from various therapeutic categories and targets.

A mass graph-based approach for the identification of modified proteoforms using top-down tandem mass spectra

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kou, Qiang; Wu, Si; Tolić, Nikola

Motivation: Although proteomics has rapidly developed in the past decade, researchers are still in the early stage of exploring the world of complex proteoforms, which are protein products with various primary structure alterations resulting from gene mutations, alternative splicing, post-translational modifications, and other biological processes. Proteoform identification is essential to mapping proteoforms to their biological functions as well as discovering novel proteoforms and new protein functions. Top-down mass spectrometry is the method of choice for identifying complex proteoforms because it provides a “bird’s eye view” of intact proteoforms. The combinatorial explosion of various alterations on a protein may result inmore » billions of possible proteoforms, making proteoform identification a challenging computational problem. Results: We propose a new data structure, called the mass graph, for efficient representation of proteoforms and design mass graph alignment algorithms. We developed TopMG, a mass graph-based software tool for proteoform identification by top-down mass spectrometry. Experiments on top-down mass spectrometry data sets showed that TopMG outperformed existing methods in identifying complex proteoforms.« less

Visual Texts and Historical Thinking: Teachers' Conceptions, Uses, and Reflections

ERIC Educational Resources Information Center

Nichols, Daniel Jude

2012-01-01

Visual texts, such as photographs, paintings, film, political cartoons, maps, charts, and graphs are important resources used for a variety of purposes in the history classroom. Aligning instructional use of visual texts to key developmental skills within the area of historical thinking should be a central concern to teachers of historical…

GIRAF: a method for fast search and flexible alignment of ligand binding interfaces in proteins at atomic resolution

PubMed Central

Kinjo, Akira R.; Nakamura, Haruki

2012-01-01

Comparison and classification of protein structures are fundamental means to understand protein functions. Due to the computational difficulty and the ever-increasing amount of structural data, however, it is in general not feasible to perform exhaustive all-against-all structure comparisons necessary for comprehensive classifications. To efficiently handle such situations, we have previously proposed a method, now called GIRAF. We herein describe further improvements in the GIRAF protein structure search and alignment method. The GIRAF method achieves extremely efficient search of similar structures of ligand binding sites of proteins by exploiting database indexing of structural features of local coordinate frames. In addition, it produces refined atom-wise alignments by iterative applications of the Hungarian method to the bipartite graph defined for a pair of superimposed structures. By combining the refined alignments based on different local coordinate frames, it is made possible to align structures involving domain movements. We provide detailed accounts for the database design, the search and alignment algorithms as well as some benchmark results. PMID:27493524

Establishing homologies in protein sequences

NASA Technical Reports Server (NTRS)

Dayhoff, M. O.; Barker, W. C.; Hunt, L. T.

1983-01-01

Computer-based statistical techniques used to determine homologies between proteins occurring in different species are reviewed. The technique is based on comparison of two protein sequences, either by relating all segments of a given length in one sequence to all segments of the second or by finding the best alignment of the two sequences. Approaches discussed include selection using printed tabulations, identification of very similar sequences, and computer searches of a database. The use of the SEARCH, RELATE, and ALIGN programs (Dayhoff, 1979) is explained; sample data are presented in graphs, diagrams, and tables and the construction of scoring matrices is considered.

Measuring Primary Students' Graph Interpretation Skills Via a Performance Assessment: A case study in instrument development

NASA Astrophysics Data System (ADS)

Peterman, Karen; Cranston, Kayla A.; Pryor, Marie; Kermish-Allen, Ruth

2015-11-01

This case study was conducted within the context of a place-based education project that was implemented with primary school students in the USA. The authors and participating teachers created a performance assessment of standards-aligned tasks to examine 6-10-year-old students' graph interpretation skills as part of an exploratory research project. Fifty-five students participated in a performance assessment interview at the beginning and end of a place-based investigation. Two forms of the assessment were created and counterbalanced within class at pre and post. In situ scoring was conducted such that responses were scored as correct versus incorrect during the assessment's administration. Criterion validity analysis demonstrated an age-level progression in student scores. Tests of discriminant validity showed that the instrument detected variability in interpretation skills across each of three graph types (line, bar, dot plot). Convergent validity was established by correlating in situ scores with those from the Graph Interpretation Scoring Rubric. Students' proficiency with interpreting different types of graphs matched expectations based on age and the standards-based progression of graphs across primary school grades. The assessment tasks were also effective at detecting pre-post gains in students' interpretation of line graphs and dot plots after the place-based project. The results of the case study are discussed in relation to the common challenges associated with performance assessment. Implications are presented in relation to the need for authentic and performance-based instructional and assessment tasks to respond to the Common Core State Standards and the Next Generation Science Standards.

Mathematical Approach to Identification of Load Structure at the Nodes of the Distribution Grids 6-10 kV and 0.4 kV

NASA Astrophysics Data System (ADS)

Nizamutdinova, T.; Mukhlynin, N.

2017-06-01

A significant increasing energy efficiency of the full cycle of production, transmission and distribution of electricity in grids should be based on the management of separate consumers of electricity. The existing energy supply systems based on the concept of «smart things» do not allow to identify the technical structure of the electricity consumption in the load nodes from the grid side. It makes solving the tasks of energy efficiency more difficult. To solve this problem, the use of Wavelet transform to create a mathematical tool for monitoring the load composition in the nodes of the distribution grids of 6-10 kV, 0.4 kV is proposed in this paper. The authors have created a unique wavelet based functions for some consumers, based on their current consumption graphs of these power consumers. Possibility of determination of the characteristics of individual consumers of electricity in total nodal charts of load is shown in the test case. In future, creation of a unified technical and informational model of load control will allow to solve the problem of increasing the economic efficiency of not only certain consumers, but also the entire power supply system as a whole.

Characterizing the SEMG patterns with myofascial pain using a multi-scale wavelet model through machine learning approaches.

PubMed

Lin, Yu-Ching; Yu, Nan-Ying; Jiang, Ching-Fen; Chang, Shao-Hsia

2018-06-02

In this paper, we introduce a newly developed multi-scale wavelet model for the interpretation of surface electromyography (SEMG) signals and validate the model's capability to characterize changes in neuromuscular activation in cases with myofascial pain syndrome (MPS) via machine learning methods. The SEMG data collected from normal (N = 30; 27 women, 3 men) and MPS subjects (N = 26; 22 women, 4 men) were adopted for this retrospective analysis. SMEGs were measured from the taut-band loci on both sides of the trapezius muscle on the upper back while he/she conducted a cyclic bilateral backward shoulder extension movement within 1 min. Classification accuracy of the SEMG model to differentiate MPS patients from normal subjects was 77% using template matching and 60% using K-means clustering. Classification consistency between the two machine learning methods was 87% in the normal group and 93% in the MPS group. The 2D feature graphs derived from the proposed multi-scale model revealed distinct patterns between normal subjects and MPS patients. The classification consistency using template matching and K-means clustering suggests the potential of using the proposed model to characterize interference pattern changes induced by MPS. Copyright © 2018. Published by Elsevier Ltd.

Multi-resolutional shape features via non-Euclidean wavelets: Applications to statistical analysis of cortical thickness

PubMed Central

Kim, Won Hwa; Singh, Vikas; Chung, Moo K.; Hinrichs, Chris; Pachauri, Deepti; Okonkwo, Ozioma C.; Johnson, Sterling C.

2014-01-01

Statistical analysis on arbitrary surface meshes such as the cortical surface is an important approach to understanding brain diseases such as Alzheimer’s disease (AD). Surface analysis may be able to identify specific cortical patterns that relate to certain disease characteristics or exhibit differences between groups. Our goal in this paper is to make group analysis of signals on surfaces more sensitive. To do this, we derive multi-scale shape descriptors that characterize the signal around each mesh vertex, i.e., its local context, at varying levels of resolution. In order to define such a shape descriptor, we make use of recent results from harmonic analysis that extend traditional continuous wavelet theory from the Euclidean to a non-Euclidean setting (i.e., a graph, mesh or network). Using this descriptor, we conduct experiments on two different datasets, the Alzheimer’s Disease NeuroImaging Initiative (ADNI) data and images acquired at the Wisconsin Alzheimer’s Disease Research Center (W-ADRC), focusing on individuals labeled as having Alzheimer’s disease (AD), mild cognitive impairment (MCI) and healthy controls. In particular, we contrast traditional univariate methods with our multi-resolution approach which show increased sensitivity and improved statistical power to detect a group-level effects. We also provide an open source implementation. PMID:24614060

Multiscale 3-D shape representation and segmentation using spherical wavelets.

PubMed

Nain, Delphine; Haker, Steven; Bobick, Aaron; Tannenbaum, Allen

2007-04-01

This paper presents a novel multiscale shape representation and segmentation algorithm based on the spherical wavelet transform. This work is motivated by the need to compactly and accurately encode variations at multiple scales in the shape representation in order to drive the segmentation and shape analysis of deep brain structures, such as the caudate nucleus or the hippocampus. Our proposed shape representation can be optimized to compactly encode shape variations in a population at the needed scale and spatial locations, enabling the construction of more descriptive, nonglobal, nonuniform shape probability priors to be included in the segmentation and shape analysis framework. In particular, this representation addresses the shortcomings of techniques that learn a global shape prior at a single scale of analysis and cannot represent fine, local variations in a population of shapes in the presence of a limited dataset. Specifically, our technique defines a multiscale parametric model of surfaces belonging to the same population using a compact set of spherical wavelets targeted to that population. We further refine the shape representation by separating into groups wavelet coefficients that describe independent global and/or local biological variations in the population, using spectral graph partitioning. We then learn a prior probability distribution induced over each group to explicitly encode these variations at different scales and spatial locations. Based on this representation, we derive a parametric active surface evolution using the multiscale prior coefficients as parameters for our optimization procedure to naturally include the prior for segmentation. Additionally, the optimization method can be applied in a coarse-to-fine manner. We apply our algorithm to two different brain structures, the caudate nucleus and the hippocampus, of interest in the study of schizophrenia. We show: 1) a reconstruction task of a test set to validate the expressiveness of our multiscale prior and 2) a segmentation task. In the reconstruction task, our results show that for a given training set size, our algorithm significantly improves the approximation of shapes in a testing set over the Point Distribution Model, which tends to oversmooth data. In the segmentation task, our validation shows our algorithm is computationally efficient and outperforms the Active Shape Model algorithm, by capturing finer shape details.

Multiscale 3-D Shape Representation and Segmentation Using Spherical Wavelets

PubMed Central

Nain, Delphine; Haker, Steven; Bobick, Aaron

2013-01-01

This paper presents a novel multiscale shape representation and segmentation algorithm based on the spherical wavelet transform. This work is motivated by the need to compactly and accurately encode variations at multiple scales in the shape representation in order to drive the segmentation and shape analysis of deep brain structures, such as the caudate nucleus or the hippocampus. Our proposed shape representation can be optimized to compactly encode shape variations in a population at the needed scale and spatial locations, enabling the construction of more descriptive, nonglobal, nonuniform shape probability priors to be included in the segmentation and shape analysis framework. In particular, this representation addresses the shortcomings of techniques that learn a global shape prior at a single scale of analysis and cannot represent fine, local variations in a population of shapes in the presence of a limited dataset. Specifically, our technique defines a multiscale parametric model of surfaces belonging to the same population using a compact set of spherical wavelets targeted to that population. We further refine the shape representation by separating into groups wavelet coefficients that describe independent global and/or local biological variations in the population, using spectral graph partitioning. We then learn a prior probability distribution induced over each group to explicitly encode these variations at different scales and spatial locations. Based on this representation, we derive a parametric active surface evolution using the multiscale prior coefficients as parameters for our optimization procedure to naturally include the prior for segmentation. Additionally, the optimization method can be applied in a coarse-to-fine manner. We apply our algorithm to two different brain structures, the caudate nucleus and the hippocampus, of interest in the study of schizophrenia. We show: 1) a reconstruction task of a test set to validate the expressiveness of our multiscale prior and 2) a segmentation task. In the reconstruction task, our results show that for a given training set size, our algorithm significantly improves the approximation of shapes in a testing set over the Point Distribution Model, which tends to oversmooth data. In the segmentation task, our validation shows our algorithm is computationally efficient and outperforms the Active Shape Model algorithm, by capturing finer shape details. PMID:17427745

Fast-SG: an alignment-free algorithm for hybrid assembly.

PubMed

Di Genova, Alex; Ruz, Gonzalo A; Sagot, Marie-France; Maass, Alejandro

2018-05-01

Long-read sequencing technologies are the ultimate solution for genome repeats, allowing near reference-level reconstructions of large genomes. However, long-read de novo assembly pipelines are computationally intense and require a considerable amount of coverage, thereby hindering their broad application to the assembly of large genomes. Alternatively, hybrid assembly methods that combine short- and long-read sequencing technologies can reduce the time and cost required to produce de novo assemblies of large genomes. Here, we propose a new method, called Fast-SG, that uses a new ultrafast alignment-free algorithm specifically designed for constructing a scaffolding graph using light-weight data structures. Fast-SG can construct the graph from either short or long reads. This allows the reuse of efficient algorithms designed for short-read data and permits the definition of novel modular hybrid assembly pipelines. Using comprehensive standard datasets and benchmarks, we show how Fast-SG outperforms the state-of-the-art short-read aligners when building the scaffoldinggraph and can be used to extract linking information from either raw or error-corrected long reads. We also show how a hybrid assembly approach using Fast-SG with shallow long-read coverage (5X) and moderate computational resources can produce long-range and accurate reconstructions of the genomes of Arabidopsis thaliana (Ler-0) and human (NA12878). Fast-SG opens a door to achieve accurate hybrid long-range reconstructions of large genomes with low effort, high portability, and low cost.

Summarizing Audiovisual Contents of a Video Program

NASA Astrophysics Data System (ADS)

Gong, Yihong

2003-12-01

In this paper, we focus on video programs that are intended to disseminate information and knowledge such as news, documentaries, seminars, etc, and present an audiovisual summarization system that summarizes the audio and visual contents of the given video separately, and then integrating the two summaries with a partial alignment. The audio summary is created by selecting spoken sentences that best present the main content of the audio speech while the visual summary is created by eliminating duplicates/redundancies and preserving visually rich contents in the image stream. The alignment operation aims to synchronize each spoken sentence in the audio summary with its corresponding speaker's face and to preserve the rich content in the visual summary. A Bipartite Graph-based audiovisual alignment algorithm is developed to efficiently find the best alignment solution that satisfies these alignment requirements. With the proposed system, we strive to produce a video summary that: (1) provides a natural visual and audio content overview, and (2) maximizes the coverage for both audio and visual contents of the original video without having to sacrifice either of them.

Array distribution in data-parallel programs

NASA Technical Reports Server (NTRS)

Chatterjee, Siddhartha; Gilbert, John R.; Schreiber, Robert; Sheffler, Thomas J.

1994-01-01

We consider distribution at compile time of the array data in a distributed-memory implementation of a data-parallel program written in a language like Fortran 90. We allow dynamic redistribution of data and define a heuristic algorithmic framework that chooses distribution parameters to minimize an estimate of program completion time. We represent the program as an alignment-distribution graph. We propose a divide-and-conquer algorithm for distribution that initially assigns a common distribution to each node of the graph and successively refines this assignment, taking computation, realignment, and redistribution costs into account. We explain how to estimate the effect of distribution on computation cost and how to choose a candidate set of distributions. We present the results of an implementation of our algorithms on several test problems.

XLWrap - Querying and Integrating Arbitrary Spreadsheets with SPARQL

NASA Astrophysics Data System (ADS)

Langegger, Andreas; Wöß, Wolfram

In this paper a novel approach is presented for generating RDF graphs of arbitrary complexity from various spreadsheet layouts. Currently, none of the available spreadsheet-to-RDF wrappers supports cross tables and tables where data is not aligned in rows. Similar to RDF123, XLWrap is based on template graphs where fragments of triples can be mapped to specific cells of a spreadsheet. Additionally, it features a full expression algebra based on the syntax of OpenOffice Calc and various shift operations, which can be used to repeat similar mappings in order to wrap cross tables including multiple sheets and spreadsheet files. The set of available expression functions includes most of the native functions of OpenOffice Calc and can be easily extended by users of XLWrap.

Automatic medical image annotation and keyword-based image retrieval using relevance feedback.

PubMed

Ko, Byoung Chul; Lee, JiHyeon; Nam, Jae-Yeal

2012-08-01

This paper presents novel multiple keywords annotation for medical images, keyword-based medical image retrieval, and relevance feedback method for image retrieval for enhancing image retrieval performance. For semantic keyword annotation, this study proposes a novel medical image classification method combining local wavelet-based center symmetric-local binary patterns with random forests. For keyword-based image retrieval, our retrieval system use the confidence score that is assigned to each annotated keyword by combining probabilities of random forests with predefined body relation graph. To overcome the limitation of keyword-based image retrieval, we combine our image retrieval system with relevance feedback mechanism based on visual feature and pattern classifier. Compared with other annotation and relevance feedback algorithms, the proposed method shows both improved annotation performance and accurate retrieval results.

Curvature correction of retinal OCTs using graph-based geometry detection

NASA Astrophysics Data System (ADS)

Kafieh, Raheleh; Rabbani, Hossein; Abramoff, Michael D.; Sonka, Milan

2013-05-01

In this paper, we present a new algorithm as an enhancement and preprocessing step for acquired optical coherence tomography (OCT) images of the retina. The proposed method is composed of two steps, first of which is a denoising algorithm with wavelet diffusion based on a circular symmetric Laplacian model, and the second part can be described in terms of graph-based geometry detection and curvature correction according to the hyper-reflective complex layer in the retina. The proposed denoising algorithm showed an improvement of contrast-to-noise ratio from 0.89 to 1.49 and an increase of signal-to-noise ratio (OCT image SNR) from 18.27 to 30.43 dB. By applying the proposed method for estimation of the interpolated curve using a full automatic method, the mean ± SD unsigned border positioning error was calculated for normal and abnormal cases. The error values of 2.19 ± 1.25 and 8.53 ± 3.76 µm were detected for 200 randomly selected slices without pathological curvature and 50 randomly selected slices with pathological curvature, respectively. The important aspect of this algorithm is its ability in detection of curvature in strongly pathological images that surpasses previously introduced methods; the method is also fast, compared to the relatively low speed of similar methods.

A new application of continuous wavelet transform to overlapping chromatograms for the quantitative analysis of amiloride hydrochloride and hydrochlorothiazide in tablets by ultra-performance liquid chromatography.

PubMed

Dinç, Erdal; Büker, Eda

2012-01-01

A new application of continuous wavelet transform (CWT) to overlapping peaks in a chromatogram was developed for the quantitative analysis of amiloride hydrochloride (AML) and hydrochlorothiazide (HCT) in tablets. Chromatographic analysis was done by using an ACQUITY ultra-performance LC (UPLC) BEH C18 column (50 x 2.1 mm id, 1.7 pm particle size) and a mobile phase consisting of methanol-0.1 M acetic acid (21 + 79, v/v) at a constant flow rate of 0.3 mL/min with diode array detection at 274 nm. The overlapping chromatographic peaks of the calibration set consisting of AML and HCT mixtures were recorded rapidly by using an ACQUITY UPLC H-Class system. The overlapping UPLC data vectors of AML and HCT drugs and their samples were processed by CWT signal processing methods. The calibration graphs for AML and HCT were computed from the relationship between concentration and areas of chromatographic CWT peaks. The applicability and validity of the improved UPLC-CWT approaches were confirmed by recovery studies and the standard addition technique. The proposed UPLC-CWT methods were applied to the determination of AML and HCT in tablets. The experimental results indicated that the suggested UPLC-CWT signal processing provides accurate and precise results for industrial QC and quantitative evaluation of AML-HCT tablets.

A mass graph-based approach for the identification of modified proteoforms using top-down tandem mass spectra.

PubMed

Kou, Qiang; Wu, Si; Tolic, Nikola; Paša-Tolic, Ljiljana; Liu, Yunlong; Liu, Xiaowen

2017-05-01

Although proteomics has rapidly developed in the past decade, researchers are still in the early stage of exploring the world of complex proteoforms, which are protein products with various primary structure alterations resulting from gene mutations, alternative splicing, post-translational modifications, and other biological processes. Proteoform identification is essential to mapping proteoforms to their biological functions as well as discovering novel proteoforms and new protein functions. Top-down mass spectrometry is the method of choice for identifying complex proteoforms because it provides a 'bird's eye view' of intact proteoforms. The combinatorial explosion of various alterations on a protein may result in billions of possible proteoforms, making proteoform identification a challenging computational problem. We propose a new data structure, called the mass graph, for efficient representation of proteoforms and design mass graph alignment algorithms. We developed TopMG, a mass graph-based software tool for proteoform identification by top-down mass spectrometry. Experiments on top-down mass spectrometry datasets showed that TopMG outperformed existing methods in identifying complex proteoforms. http://proteomics.informatics.iupui.edu/software/topmg/. xwliu@iupui.edu. Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com

Integrative network alignment reveals large regions of global network similarity in yeast and human.

PubMed

Kuchaiev, Oleksii; Przulj, Natasa

2011-05-15

High-throughput methods for detecting molecular interactions have produced large sets of biological network data with much more yet to come. Analogous to sequence alignment, efficient and reliable network alignment methods are expected to improve our understanding of biological systems. Unlike sequence alignment, network alignment is computationally intractable. Hence, devising efficient network alignment heuristics is currently a foremost challenge in computational biology. We introduce a novel network alignment algorithm, called Matching-based Integrative GRAph ALigner (MI-GRAAL), which can integrate any number and type of similarity measures between network nodes (e.g. proteins), including, but not limited to, any topological network similarity measure, sequence similarity, functional similarity and structural similarity. Hence, we resolve the ties in similarity measures and find a combination of similarity measures yielding the largest contiguous (i.e. connected) and biologically sound alignments. MI-GRAAL exposes the largest functional, connected regions of protein-protein interaction (PPI) network similarity to date: surprisingly, it reveals that 77.7% of proteins in the baker's yeast high-confidence PPI network participate in such a subnetwork that is fully contained in the human high-confidence PPI network. This is the first demonstration that species as diverse as yeast and human contain so large, continuous regions of global network similarity. We apply MI-GRAAL's alignments to predict functions of un-annotated proteins in yeast, human and bacteria validating our predictions in the literature. Furthermore, using network alignment scores for PPI networks of different herpes viruses, we reconstruct their phylogenetic relationship. This is the first time that phylogeny is exactly reconstructed from purely topological alignments of PPI networks. Supplementary files and MI-GRAAL executables: http://bio-nets.doc.ic.ac.uk/MI-GRAAL/.

Eigenvector synchronization, graph rigidity and the molecule problemR

PubMed Central

Cucuringu, Mihai; Singer, Amit; Cowburn, David

2013-01-01

The graph realization problem has received a great deal of attention in recent years, due to its importance in applications such as wireless sensor networks and structural biology. In this paper, we extend the previous work and propose the 3D-As-Synchronized-As-Possible (3D-ASAP) algorithm, for the graph realization problem in ℝ3, given a sparse and noisy set of distance measurements. 3D-ASAP is a divide and conquer, non-incremental and non-iterative algorithm, which integrates local distance information into a global structure determination. Our approach starts with identifying, for every node, a subgraph of its 1-hop neighborhood graph, which can be accurately embedded in its own coordinate system. In the noise-free case, the computed coordinates of the sensors in each patch must agree with their global positioning up to some unknown rigid motion, that is, up to translation, rotation and possibly reflection. In other words, to every patch, there corresponds an element of the Euclidean group, Euc(3), of rigid transformations in ℝ3, and the goal was to estimate the group elements that will properly align all the patches in a globally consistent way. Furthermore, 3D-ASAP successfully incorporates information specific to the molecule problem in structural biology, in particular information on known substructures and their orientation. In addition, we also propose 3D-spectral-partitioning (SP)-ASAP, a faster version of 3D-ASAP, which uses a spectral partitioning algorithm as a pre-processing step for dividing the initial graph into smaller subgraphs. Our extensive numerical simulations show that 3D-ASAP and 3D-SP-ASAP are very robust to high levels of noise in the measured distances and to sparse connectivity in the measurement graph, and compare favorably with similar state-of-the-art localization algorithms. PMID:24432187

Introduction to bioinformatics.

PubMed

Can, Tolga

2014-01-01

Bioinformatics is an interdisciplinary field mainly involving molecular biology and genetics, computer science, mathematics, and statistics. Data intensive, large-scale biological problems are addressed from a computational point of view. The most common problems are modeling biological processes at the molecular level and making inferences from collected data. A bioinformatics solution usually involves the following steps: Collect statistics from biological data. Build a computational model. Solve a computational modeling problem. Test and evaluate a computational algorithm. This chapter gives a brief introduction to bioinformatics by first providing an introduction to biological terminology and then discussing some classical bioinformatics problems organized by the types of data sources. Sequence analysis is the analysis of DNA and protein sequences for clues regarding function and includes subproblems such as identification of homologs, multiple sequence alignment, searching sequence patterns, and evolutionary analyses. Protein structures are three-dimensional data and the associated problems are structure prediction (secondary and tertiary), analysis of protein structures for clues regarding function, and structural alignment. Gene expression data is usually represented as matrices and analysis of microarray data mostly involves statistics analysis, classification, and clustering approaches. Biological networks such as gene regulatory networks, metabolic pathways, and protein-protein interaction networks are usually modeled as graphs and graph theoretic approaches are used to solve associated problems such as construction and analysis of large-scale networks.

Deciding Termination for Ancestor Match- Bounded String Rewriting Systems

NASA Technical Reports Server (NTRS)

Geser, Alfons; Hofbauer, Dieter; Waldmann, Johannes

2005-01-01

Termination of a string rewriting system can be characterized by termination on suitable recursively defined languages. This kind of termination criteria has been criticized for its lack of automation. In an earlier paper we have shown how to construct an automated termination criterion if the recursion is aligned with the rewrite relation. We have demonstrated the technique with Dershowitz's forward closure criterion. In this paper we show that a different approach is suitable when the recursion is aligned with the inverse of the rewrite relation. We apply this idea to Kurth's ancestor graphs and obtain ancestor match-bounded string rewriting systems. Termination is shown to be decidable for this class. The resulting method improves upon those based on match-boundedness or inverse match-boundedness.

Prediction of AL and Dst Indices from ACE Measurements Using Hybrid Physics/Black-Box Techniques

NASA Astrophysics Data System (ADS)

Spencer, E.; Rao, A.; Horton, W.; Mays, L.

2008-12-01

ACE measurements of the solar wind velocity, IMF and proton density is used to drive a hybrid Physics/Black- Box model of the nightside magnetosphere. The core physics is contained in a low order nonlinear dynamical model of the nightside magnetosphere called WINDMI. The model is augmented by wavelet based nonlinear mappings between the solar wind quantities and the input into the physics model, followed by further wavelet based mappings of the model output field aligned currents onto the ground based magnetometer measurements of the AL index and Dst index. The black box mappings are introduced at the input stage to account for uncertainties in the way the solar wind quantities are transported from the ACE spacecraft at L1 to the magnetopause. Similar mappings are introduced at the output stage to account for a spatially and temporally varying westward auroral electrojet geometry. The parameters of the model are tuned using a genetic algorithm, and trained using the large geomagnetic storm dataset of October 3-7 2000. It's predictive performance is then evaluated on subsequent storm datasets, in particular the April 15-24 2002 storm. This work is supported by grant NSF 7020201

Automated human skull landmarking with 2D Gabor wavelets

NASA Astrophysics Data System (ADS)

de Jong, Markus A.; Gül, Atilla; de Gijt, Jan Pieter; Koudstaal, Maarten J.; Kayser, Manfred; Wolvius, Eppo B.; Böhringer, Stefan

2018-05-01

Landmarking of CT scans is an important step in the alignment of skulls that is key in surgery planning, pre-/post-surgery comparisons, and morphometric studies. We present a novel method for automatically locating anatomical landmarks on the surface of cone beam CT-based image models of human skulls using 2D Gabor wavelets and ensemble learning. The algorithm is validated via human inter- and intra-rater comparisons on a set of 39 scans and a skull superimposition experiment with an established surgery planning software (Maxilim). Automatic landmarking results in an accuracy of 1–2 mm for a subset of landmarks around the nose area as compared to a gold standard derived from human raters. These landmarks are located in eye sockets and lower jaw, which is competitive with or surpasses inter-rater variability. The well-performing landmark subsets allow for the automation of skull superimposition in clinical applications. Our approach delivers accurate results, has modest training requirements (training set size of 30–40 items) and is generic, so that landmark sets can be easily expanded or modified to accommodate shifting landmark interests, which are important requirements for the landmarking of larger cohorts.

Solving Hard Computational Problems Efficiently: Asymptotic Parametric Complexity 3-Coloring Algorithm

PubMed Central

Martín H., José Antonio

2013-01-01

Many practical problems in almost all scientific and technological disciplines have been classified as computationally hard (NP-hard or even NP-complete). In life sciences, combinatorial optimization problems frequently arise in molecular biology, e.g., genome sequencing; global alignment of multiple genomes; identifying siblings or discovery of dysregulated pathways. In almost all of these problems, there is the need for proving a hypothesis about certain property of an object that can be present if and only if it adopts some particular admissible structure (an NP-certificate) or be absent (no admissible structure), however, none of the standard approaches can discard the hypothesis when no solution can be found, since none can provide a proof that there is no admissible structure. This article presents an algorithm that introduces a novel type of solution method to “efficiently” solve the graph 3-coloring problem; an NP-complete problem. The proposed method provides certificates (proofs) in both cases: present or absent, so it is possible to accept or reject the hypothesis on the basis of a rigorous proof. It provides exact solutions and is polynomial-time (i.e., efficient) however parametric. The only requirement is sufficient computational power, which is controlled by the parameter . Nevertheless, here it is proved that the probability of requiring a value of to obtain a solution for a random graph decreases exponentially: , making tractable almost all problem instances. Thorough experimental analyses were performed. The algorithm was tested on random graphs, planar graphs and 4-regular planar graphs. The obtained experimental results are in accordance with the theoretical expected results. PMID:23349711

Net2Align: An Algorithm For Pairwise Global Alignment of Biological Networks

PubMed Central

Wadhwab, Gulshan; Upadhyayaa, K. C.

2016-01-01

The amount of data on molecular interactions is growing at an enormous pace, whereas the progress of methods for analysing this data is still lacking behind. Particularly, in the area of comparative analysis of biological networks, where one wishes to explore the similarity between two biological networks, this holds a potential problem. In consideration that the functionality primarily runs at the network level, it advocates the need for robust comparison methods. In this paper, we describe Net2Align, an algorithm for pairwise global alignment that can perform node-to-node correspondences as well as edge-to-edge correspondences into consideration. The uniqueness of our algorithm is in the fact that it is also able to detect the type of interaction, which is essential in case of directed graphs. The existing algorithm is only able to identify the common nodes but not the common edges. Another striking feature of the algorithm is that it is able to remove duplicate entries in case of variable datasets being aligned. This is achieved through creation of a local database which helps exclude duplicate links. In a pervasive computational study on gene regulatory network, we establish that our algorithm surpasses its counterparts in its results. Net2Align has been implemented in Java 7 and the source code is available as supplementary files. PMID:28356678

A novel model for DNA sequence similarity analysis based on graph theory.

PubMed

Qi, Xingqin; Wu, Qin; Zhang, Yusen; Fuller, Eddie; Zhang, Cun-Quan

2011-01-01

Determination of sequence similarity is one of the major steps in computational phylogenetic studies. As we know, during evolutionary history, not only DNA mutations for individual nucleotide but also subsequent rearrangements occurred. It has been one of major tasks of computational biologists to develop novel mathematical descriptors for similarity analysis such that various mutation phenomena information would be involved simultaneously. In this paper, different from traditional methods (eg, nucleotide frequency, geometric representations) as bases for construction of mathematical descriptors, we construct novel mathematical descriptors based on graph theory. In particular, for each DNA sequence, we will set up a weighted directed graph. The adjacency matrix of the directed graph will be used to induce a representative vector for DNA sequence. This new approach measures similarity based on both ordering and frequency of nucleotides so that much more information is involved. As an application, the method is tested on a set of 0.9-kb mtDNA sequences of twelve different primate species. All output phylogenetic trees with various distance estimations have the same topology, and are generally consistent with the reported results from early studies, which proves the new method's efficiency; we also test the new method on a simulated data set, which shows our new method performs better than traditional global alignment method when subsequent rearrangements happen frequently during evolutionary history.

Instantaneous brain dynamics mapped to a continuous state space.

PubMed

Billings, Jacob C W; Medda, Alessio; Shakil, Sadia; Shen, Xiaohong; Kashyap, Amrit; Chen, Shiyang; Abbas, Anzar; Zhang, Xiaodi; Nezafati, Maysam; Pan, Wen-Ju; Berman, Gordon J; Keilholz, Shella D

2017-11-15

Measures of whole-brain activity, from techniques such as functional Magnetic Resonance Imaging, provide a means to observe the brain's dynamical operations. However, interpretation of whole-brain dynamics has been stymied by the inherently high-dimensional structure of brain activity. The present research addresses this challenge through a series of scale transformations in the spectral, spatial, and relational domains. Instantaneous multispectral dynamics are first developed from input data via a wavelet filter bank. Voxel-level signals are then projected onto a representative set of spatially independent components. The correlation distance over the instantaneous wavelet-ICA state vectors is a graph that may be embedded onto a lower-dimensional space to assist the interpretation of state-space dynamics. Applying this procedure to a large sample of resting-state and task-active data (acquired through the Human Connectome Project), we segment the empirical state space into a continuum of stimulus-dependent brain states. Upon observing the local neighborhood of brain-states adopted subsequent to each stimulus, we may conclude that resting brain activity includes brain states that are, at times, similar to those adopted during tasks, but that are at other times distinct from task-active brain states. As task-active brain states often populate a local neighborhood, back-projection of segments of the dynamical state space onto the brain's surface reveals the patterns of brain activity that support many experimentally-defined states. Copyright © 2017 Elsevier Inc. All rights reserved.

The norms and variances of the Gabor, Morlet and general harmonic wavelet functions

NASA Astrophysics Data System (ADS)

Simonovski, I.; Boltežar, M.

2003-07-01

This paper deals with certain properties of the continuous wavelet transform and wavelet functions. The norms and the spreads in time and frequency of the common Gabor and Morlet wavelet functions are presented. It is shown that the norm of the Morlet wavelet function does not satisfy the normalization condition and that the normalized Morlet wavelet function is identical to the Gabor wavelet function with the parameter σ=1. The general harmonic wavelet function is developed using frequency modulation of the Hanning and Hamming window functions. Several properties of the general harmonic wavelet function are also presented and compared to the Gabor wavelet function. The time and frequency spreads of the general harmonic wavelet function are only slightly higher than the time and frequency spreads of the Gabor wavelet function. However, the general harmonic wavelet function is simpler to use than the Gabor wavelet function. In addition, the general harmonic wavelet function can be constructed in such a way that the zero average condition is truly satisfied. The average value of the Gabor wavelet function can approach a value of zero but it cannot reach it. When calculating the continuous wavelet transform, errors occur at the start- and the end-time indexes. This is called the edge effect and is caused by the fact that the wavelet transform is calculated from a signal of finite length. In this paper, we propose a method that uses signal mirroring to reduce the errors caused by the edge effect. The success of the proposed method is demonstrated by using a simulated signal.

Optimal wavelets for biomedical signal compression.

PubMed

Nielsen, Mogens; Kamavuako, Ernest Nlandu; Andersen, Michael Midtgaard; Lucas, Marie-Françoise; Farina, Dario

2006-07-01

Signal compression is gaining importance in biomedical engineering due to the potential applications in telemedicine. In this work, we propose a novel scheme of signal compression based on signal-dependent wavelets. To adapt the mother wavelet to the signal for the purpose of compression, it is necessary to define (1) a family of wavelets that depend on a set of parameters and (2) a quality criterion for wavelet selection (i.e., wavelet parameter optimization). We propose the use of an unconstrained parameterization of the wavelet for wavelet optimization. A natural performance criterion for compression is the minimization of the signal distortion rate given the desired compression rate. For coding the wavelet coefficients, we adopted the embedded zerotree wavelet coding algorithm, although any coding scheme may be used with the proposed wavelet optimization. As a representative example of application, the coding/encoding scheme was applied to surface electromyographic signals recorded from ten subjects. The distortion rate strongly depended on the mother wavelet (for example, for 50% compression rate, optimal wavelet, mean+/-SD, 5.46+/-1.01%; worst wavelet 12.76+/-2.73%). Thus, optimization significantly improved performance with respect to previous approaches based on classic wavelets. The algorithm can be applied to any signal type since the optimal wavelet is selected on a signal-by-signal basis. Examples of application to ECG and EEG signals are also reported.

NASA Tech Briefs, December 2013

NASA Technical Reports Server (NTRS)

2013-01-01

Topics include: Microwave Kinetic Inductance Detector With; Selective Polarization Coupling; Flexible Microstrip Circuits for; Superconducting Electronics; CFD Extraction Tool for TecPlot From DPLR Solutions; RECOVIR Software for Identifying Viruses; Enhanced Contact Graph Routing (ECGR) MACHETE Simulation Model; Orbital Debris Engineering Model (ORDEM) v.3; Scatter-Reducing Sounding Filtration Using a Genetic Algorithm and Mean Monthly Standard Deviation; Thermo-Mechanical Methodology for Stabilizing Shape Memory Alloy Response; Hermetic Seal Designs for Sample Return Sample Tubes; Silicon Alignment Pins: An Easy Way To Realize a Wafer-to-Wafer Alignment; Positive-Buoyancy Rover for Under Ice Mobility; Electric Machine With Boosted Inductance to Stabilize Current Control; International Space Station-Based Electromagnetic Launcher for Space Science Payloads; Advanced Hybrid Spacesuit Concept Featuring Integrated Open Loop and Closed Loop Ventilation Systems; Data Quality Screening Service.

Protein-protein interaction network-based detection of functionally similar proteins within species.

PubMed

Song, Baoxing; Wang, Fen; Guo, Yang; Sang, Qing; Liu, Min; Li, Dengyun; Fang, Wei; Zhang, Deli

2012-07-01

Although functionally similar proteins across species have been widely studied, functionally similar proteins within species showing low sequence similarity have not been examined in detail. Identification of these proteins is of significant importance for understanding biological functions, evolution of protein families, progression of co-evolution, and convergent evolution and others which cannot be obtained by detection of functionally similar proteins across species. Here, we explored a method of detecting functionally similar proteins within species based on graph theory. After denoting protein-protein interaction networks using graphs, we split the graphs into subgraphs using the 1-hop method. Proteins with functional similarities in a species were detected using a method of modified shortest path to compare these subgraphs and to find the eligible optimal results. Using seven protein-protein interaction networks and this method, some functionally similar proteins with low sequence similarity that cannot detected by sequence alignment were identified. By analyzing the results, we found that, sometimes, it is difficult to separate homologous from convergent evolution. Evaluation of the performance of our method by gene ontology term overlap showed that the precision of our method was excellent. Copyright © 2012 Wiley Periodicals, Inc.

Sequence comparison alignment-free approach based on suffix tree and L-words frequency.

PubMed

Soares, Inês; Goios, Ana; Amorim, António

2012-01-01

The vast majority of methods available for sequence comparison rely on a first sequence alignment step, which requires a number of assumptions on evolutionary history and is sometimes very difficult or impossible to perform due to the abundance of gaps (insertions/deletions). In such cases, an alternative alignment-free method would prove valuable. Our method starts by a computation of a generalized suffix tree of all sequences, which is completed in linear time. Using this tree, the frequency of all possible words with a preset length L-L-words--in each sequence is rapidly calculated. Based on the L-words frequency profile of each sequence, a pairwise standard Euclidean distance is then computed producing a symmetric genetic distance matrix, which can be used to generate a neighbor joining dendrogram or a multidimensional scaling graph. We present an improvement to word counting alignment-free approaches for sequence comparison, by determining a single optimal word length and combining suffix tree structures to the word counting tasks. Our approach is, thus, a fast and simple application that proved to be efficient and powerful when applied to mitochondrial genomes. The algorithm was implemented in Python language and is freely available on the web.

Inference of strata separation and gas emission paths in longwall overburden using continuous wavelet transform of well logs and geostatistical simulation

NASA Astrophysics Data System (ADS)

Karacan, C. Özgen; Olea, Ricardo A.

2014-06-01

Prediction of potential methane emission pathways from various sources into active mine workings or sealed gobs from longwall overburden is important for controlling methane and for improving mining safety. The aim of this paper is to infer strata separation intervals and thus gas emission pathways from standard well log data. The proposed technique was applied to well logs acquired through the Mary Lee/Blue Creek coal seam of the Upper Pottsville Formation in the Black Warrior Basin, Alabama, using well logs from a series of boreholes aligned along a nearly linear profile. For this purpose, continuous wavelet transform (CWT) of digitized gamma well logs was performed by using Mexican hat and Morlet, as the mother wavelets, to identify potential discontinuities in the signal. Pointwise Hölder exponents (PHE) of gamma logs were also computed using the generalized quadratic variations (GQV) method to identify the location and strength of singularities of well log signals as a complementary analysis. PHEs and wavelet coefficients were analyzed to find the locations of singularities along the logs. Using the well logs in this study, locations of predicted singularities were used as indicators in single normal equation simulation (SNESIM) to generate equi-probable realizations of potential strata separation intervals. Horizontal and vertical variograms of realizations were then analyzed and compared with those of indicator data and training image (TI) data using the Kruskal-Wallis test. A sum of squared differences was employed to select the most probable realization representing the locations of potential strata separations and methane flow paths. Results indicated that singularities located in well log signals reliably correlated with strata transitions or discontinuities within the strata. Geostatistical simulation of these discontinuities provided information about the location and extents of the continuous channels that may form during mining. If there is a gas source within their zone of influence, paths may develop and allow methane movement towards sealed or active gobs under pressure differentials. Knowledge gained from this research will better prepare mine operations for potential methane inflows, thus improving mine safety.

Wavelets in Physics

NASA Astrophysics Data System (ADS)

van den Berg, J. C.

2004-03-01

A guided tour J. C. van den Berg; 1. Wavelet analysis, a new tool in physics J.-P. Antoine; 2. The 2-D wavelet transform, physical applications J.-P. Antoine; 3. Wavelets and astrophysical applications A. Bijaoui; 4. Turbulence analysis, modelling and computing using wavelets M. Farge, N. K.-R. Kevlahan, V. Perrier and K. Schneider; 5. Wavelets and detection of coherent structures in fluid turbulence L. Hudgins and J. H. Kaspersen; 6. Wavelets, non-linearity and turbulence in fusion plasmas B. Ph. van Milligen; 7. Transfers and fluxes of wind kinetic energy between orthogonal wavelet components during atmospheric blocking A. Fournier; 8. Wavelets in atomic physics and in solid state physics J.-P. Antoine, Ph. Antoine and B. Piraux; 9. The thermodynamics of fractals revisited with wavelets A. Arneodo, E. Bacry and J. F. Muzy; 10. Wavelets in medicine and physiology P. Ch. Ivanov, A. L. Goldberger, S. Havlin, C.-K. Peng, M. G. Rosenblum and H. E. Stanley; 11. Wavelet dimension and time evolution Ch.-A. Guérin and M. Holschneider.

Wavelets in Physics

NASA Astrophysics Data System (ADS)

van den Berg, J. C.

1999-08-01

A guided tour J. C. van den Berg; 1. Wavelet analysis, a new tool in physics J.-P. Antoine; 2. The 2-D wavelet transform, physical applications J.-P. Antoine; 3. Wavelets and astrophysical applications A. Bijaoui; 4. Turbulence analysis, modelling and computing using wavelets M. Farge, N. K.-R. Kevlahan, V. Perrier and K. Schneider; 5. Wavelets and detection of coherent structures in fluid turbulence L. Hudgins and J. H. Kaspersen; 6. Wavelets, non-linearity and turbulence in fusion plasmas B. Ph. van Milligen; 7. Transfers and fluxes of wind kinetic energy between orthogonal wavelet components during atmospheric blocking A. Fournier; 8. Wavelets in atomic physics and in solid state physics J.-P. Antoine, Ph. Antoine and B. Piraux; 9. The thermodynamics of fractals revisited with wavelets A. Arneodo, E. Bacry and J. F. Muzy; 10. Wavelets in medicine and physiology P. Ch. Ivanov, A. L. Goldberger, S. Havlin, C.-K. Peng, M. G. Rosenblum and H. E. Stanley; 11. Wavelet dimension and time evolution Ch.-A. Guérin and M. Holschneider.

Graph Matching for the Registration of Persistent Scatterers to Optical Oblique Imagery

NASA Astrophysics Data System (ADS)

Schack, L.; Soergel, U.; Heipke, C.

2016-06-01

Matching Persistent Scatterers (PS) to airborne optical imagery is one possibility to augment applications and deepen the understanding of SAR processing and products. While recently this data registration task was done with PS and optical nadir images the alternatively available optical oblique imagery is mostly neglected. Yet, the sensing geometry of oblique images is very similar in terms of viewing direction with respect to SAR.We exploit the additional information coming with these optical sensors to assign individual PS to single parts of buildings. The key idea is to incorporate topology information which is derived by grouping regularly aligned PS at facades and use it together with a geometry based measure in order to establish a consistent and meaningful matching result. We formulate this task as an optimization problem and derive a graph matching based algorithm with guaranteed convergence in order to solve it. Two exemplary case studies show the plausibility of the presented approach.

Enhancing seismic P phase arrival picking based on wavelet denoising and kurtosis picker

NASA Astrophysics Data System (ADS)

Shang, Xueyi; Li, Xibing; Weng, Lei

2018-01-01

P phase arrival picking of weak signals is still challenging in seismology. A wavelet denoising is proposed to enhance seismic P phase arrival picking, and the kurtosis picker is applied on the wavelet-denoised signal to identify P phase arrival. It has been called the WD-K picker. The WD-K picker, which is different from those traditional wavelet-based pickers on the basis of a single wavelet component or certain main wavelet components, takes full advantage of the reconstruction of main detail wavelet components and the approximate wavelet component. The proposed WD-K picker considers more wavelet components and presents a better P phase arrival feature. The WD-K picker has been evaluated on 500 micro-seismic signals recorded in the Chinese Yongshaba mine. The comparison between the WD-K pickings and manual pickings shows the good picking accuracy of the WD-K picker. Furthermore, the WD-K picking performance has been compared with the main detail wavelet component combining-based kurtosis (WDC-K) picker, the single wavelet component-based kurtosis (SW-K) picker, and certain main wavelet component-based maximum kurtosis (MMW-K) picker. The comparison has demonstrated that the WD-K picker has better picking accuracy than the other three-wavelet and kurtosis-based pickers, thus showing the enhanced ability of wavelet denoising.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hudgins, L.H.

After a brief review of the elementary properties of Fourier Transforms, the Wavelet Transform is defined in Part I. Basic results are given for admissable wavelets. The Multiresolution Analysis, or MRA (a mathematical structure which unifies a large class of wavelets with Quadrature Mirror Filters) is then introduced. Some fundamental aspects of wavelet design are then explored. The Discrete Wavelet Transform is discussed and, in the context of an MRA, is seen to supply a Fast Wavelet Transform which competes with the Fast Fourier Transform for efficiency. In Part II, the Wavelet Transform is developed in terms of the scalemore » number variable s instead of the scale length variable a where a = 1/s. Basic results such as the admissibility condition, conservation of energy, and the reconstruction theorem are proven in this context. After reviewing some motivation for the usual Fourier power spectrum, a definition is given for the wavelet power spectrum. This `spectral density` is then intepreted in the context of spectral estimation theory. Parseval`s theorem for Wavelets then leads naturally to the Wavelet Cross Spectrum, Wavelet Cospectrum, and Wavelet Quadrature Spectrum. Wavelet Transforms are then applied in Part III to the analysis of atmospheric turbulence. Data collected over the ocean is examined in the wavelet transform domain for underlying structure. A brief overview of atmospheric turbulence is provided. Then the overall method of applying Wavelet Transform techniques to time series data is described. A trace study is included, showing some of the aspects of choosing the computational algorithm, and selection of a specific analyzing wavelet. A model for generating synthetic turbulence data is developed, and seen to yield useful results in comparing with real data for structural transitions. Results from the theory of Wavelet Spectral Estimation and Wavelength Cross-Transforms are applied to studying the momentum transport and the heat flux.« less

BiPACE 2D--graph-based multiple alignment for comprehensive 2D gas chromatography-mass spectrometry.

PubMed

Hoffmann, Nils; Wilhelm, Mathias; Doebbe, Anja; Niehaus, Karsten; Stoye, Jens

2014-04-01

Comprehensive 2D gas chromatography-mass spectrometry is an established method for the analysis of complex mixtures in analytical chemistry and metabolomics. It produces large amounts of data that require semiautomatic, but preferably automatic handling. This involves the location of significant signals (peaks) and their matching and alignment across different measurements. To date, there exist only a few openly available algorithms for the retention time alignment of peaks originating from such experiments that scale well with increasing sample and peak numbers, while providing reliable alignment results. We describe BiPACE 2D, an automated algorithm for retention time alignment of peaks from 2D gas chromatography-mass spectrometry experiments and evaluate it on three previously published datasets against the mSPA, SWPA and Guineu algorithms. We also provide a fourth dataset from an experiment studying the H2 production of two different strains of Chlamydomonas reinhardtii that is available from the MetaboLights database together with the experimental protocol, peak-detection results and manually curated multiple peak alignment for future comparability with newly developed algorithms. BiPACE 2D is contained in the freely available Maltcms framework, version 1.3, hosted at http://maltcms.sf.net, under the terms of the L-GPL v3 or Eclipse Open Source licenses. The software used for the evaluation along with the underlying datasets is available at the same location. The C.reinhardtii dataset is freely available at http://www.ebi.ac.uk/metabolights/MTBLS37.

Wavelet transforms with discrete-time continuous-dilation wavelets

NASA Astrophysics Data System (ADS)

Zhao, Wei; Rao, Raghuveer M.

1999-03-01

Wavelet constructions and transforms have been confined principally to the continuous-time domain. Even the discrete wavelet transform implemented through multirate filter banks is based on continuous-time wavelet functions that provide orthogonal or biorthogonal decompositions. This paper provides a novel wavelet transform construction based on the definition of discrete-time wavelets that can undergo continuous parameter dilations. The result is a transformation that has the advantage of discrete-time or digital implementation while circumventing the problem of inadequate scaling resolution seen with conventional dyadic or M-channel constructions. Examples of constructing such wavelets are presented.

Assessment of Graph Databases as a Viable Materiel Solution for the Army’s Dynamic Force Structure (DFS) Portal Implementation

DTIC Science & Technology

2018-03-30

information : Francisco L. Loaiza-Lemos, Project Leader floaiza@ida.org, 703-845-687 Margaret E. Myers, Director, Information Technology and Systems...analysis is aligned with the goals and objectives of the Department of Defense (DoD) as expressed in its Global Force Management Data Initiative...the previous phases of the analysis and how can they help inform the decision process for determining the optimal mix needed to implement the planned

Study of field-aligned current (FAC), interplanetary electric field component (Ey), interplanetary magnetic field component (Bz), and northward (x) and eastward (y) components of geomagnetic field during supersubstorm

NASA Astrophysics Data System (ADS)

Adhikari, Binod; Dahal, Subodh; Chapagain, Narayan P.

2017-05-01

A dominant process by which energy and momentum are transported from the magnetosphere to the ionosphere is known as field-aligned current (FAC). It is enhanced during magnetic reconnection and explosive energy release at a substorm. In this paper, we studied FAC, interplanetary electric field component (Ey), interplanetary magnetic field component (Bz), and northward (x) and eastward (y) components of geomagnetic field during three events of supersubstorm occurred on 24 November 2001, 21 January 2005, and 24 August 2005. Large-scale FAC, supposed to be produced during supersubstorm (SSS), has potentiality to cause blackout on Earth. We examined temporal variations of the x and y components of high-latitude geomagnetic field during SSS, which is attributed to the FACs. We shall report the characteristics of high-latitude northward and eastward components of geomagnetic field variation during the growth phase of SSS by the implementation of discrete wavelet transform (DWT) and cross-correlation analysis. Among three examples of SSS events, the highest peak value of FAC was estimated to be 19 μAm-2. This is shore up with the prediction made by Parks (1991) and Stasiewicz et al. (1998) that the FACs may vary from a few tens to several hundred μAm-2. Although this peak value of FACs for SSS event is much higher than the average FACs associated with regular substorms or magnetic storms, it is expedient and can be expect for SSS events which might be due to very high density solar wind plasma parcels (PPs) triggering the SSS events. In all events, during growth phase, the FAC increases to extremely high level and the geomagnetic northward component decreases to extremely low level. This represents a strong positive correlation between FAC and geomagnetic northward component. The DWT analysis accounts that the highest amplitude of the wavelet coefficients indicates singularities present in FAC during SSS event. But the amplitude of squared wavelet coefficient is found to be different from each other, which might be due to the solar wind PPs of different density triggering the SSS events. The cross-correlation analysis suggests that the perturbation on geomagnetic northward component at high latitude during SSS strongly correlates with the fluctuation pattern of FAC density. Hence, the FAC is the primary sources for the eastward-westward magnetic field perturbations at high latitude.

Time-frequency analysis of phonocardiogram signals using wavelet transform: a comparative study.

PubMed

Ergen, Burhan; Tatar, Yetkin; Gulcur, Halil Ozcan

2012-01-01

Analysis of phonocardiogram (PCG) signals provides a non-invasive means to determine the abnormalities caused by cardiovascular system pathology. In general, time-frequency representation (TFR) methods are used to study the PCG signal because it is one of the non-stationary bio-signals. The continuous wavelet transform (CWT) is especially suitable for the analysis of non-stationary signals and to obtain the TFR, due to its high resolution, both in time and in frequency and has recently become a favourite tool. It decomposes a signal in terms of elementary contributions called wavelets, which are shifted and dilated copies of a fixed mother wavelet function, and yields a joint TFR. Although the basic characteristics of the wavelets are similar, each type of the wavelets produces a different TFR. In this study, eight real types of the most known wavelets are examined on typical PCG signals indicating heart abnormalities in order to determine the best wavelet to obtain a reliable TFR. For this purpose, the wavelet energy and frequency spectrum estimations based on the CWT and the spectra of the chosen wavelets were compared with the energy distribution and the autoregressive frequency spectra in order to determine the most suitable wavelet. The results show that Morlet wavelet is the most reliable wavelet for the time-frequency analysis of PCG signals.

Wavelets and distributed approximating functionals

NASA Astrophysics Data System (ADS)

Wei, G. W.; Kouri, D. J.; Hoffman, D. K.

1998-07-01

A general procedure is proposed for constructing father and mother wavelets that have excellent time-frequency localization and can be used to generate entire wavelet families for use as wavelet transforms. One interesting feature of our father wavelets (scaling functions) is that they belong to a class of generalized delta sequences, which we refer to as distributed approximating functionals (DAFs). We indicate this by the notation wavelet-DAFs. Correspondingly, the mother wavelets generated from these wavelet-DAFs are appropriately called DAF-wavelets. Wavelet-DAFs can be regarded as providing a pointwise (localized) spectral method, which furnishes a bridge between the traditional global methods and local methods for solving partial differential equations. They are shown to provide extremely accurate numerical solutions for a number of nonlinear partial differential equations, including the Korteweg-de Vries (KdV) equation, for which a previous method has encountered difficulties (J. Comput. Phys. 132 (1997) 233).

Reference point detection for camera-based fingerprint image based on wavelet transformation.

PubMed

Khalil, Mohammed S

2015-04-30

Fingerprint recognition systems essentially require core-point detection prior to fingerprint matching. The core-point is used as a reference point to align the fingerprint with a template database. When processing a larger fingerprint database, it is necessary to consider the core-point during feature extraction. Numerous core-point detection methods are available and have been reported in the literature. However, these methods are generally applied to scanner-based images. Hence, this paper attempts to explore the feasibility of applying a core-point detection method to a fingerprint image obtained using a camera phone. The proposed method utilizes a discrete wavelet transform to extract the ridge information from a color image. The performance of proposed method is evaluated in terms of accuracy and consistency. These two indicators are calculated automatically by comparing the method's output with the defined core points. The proposed method is tested on two data sets, controlled and uncontrolled environment, collected from 13 different subjects. In the controlled environment, the proposed method achieved a detection rate 82.98%. In uncontrolled environment, the proposed method yield a detection rate of 78.21%. The proposed method yields promising results in a collected-image database. Moreover, the proposed method outperformed compare to existing method.

Applying wavelet transforms to analyse aircraft-measured turbulence and turbulent fluxes in the atmospheric boundary layer over eastern Siberia

NASA Astrophysics Data System (ADS)

Strunin, M. A.; Hiyama, T.

2004-11-01

The wavelet spectral method was applied to aircraft-based measurements of atmospheric turbulence obtained during joint Russian-Japanese research on the atmospheric boundary layer near Yakutsk (eastern Siberia) in April-June 2000. Practical ways to apply Fourier and wavelet methods for aircraft-based turbulence data are described. Comparisons between Fourier and wavelet transform results are shown and they demonstrate, in conjunction with theoretical and experimental restrictions, that the Fourier transform method is not useful for studying non-homogeneous turbulence. The wavelet method is free from many disadvantages of Fourier analysis and can yield more informative results. Comparison of Fourier and Morlet wavelet spectra showed good agreement at high frequencies (small scales). The quality of the wavelet transform and corresponding software was estimated by comparing the original data with restored data constructed with an inverse wavelet transform. A Haar wavelet basis was inappropriate for the turbulence data; the mother wavelet function recommended in this study is the Morlet wavelet. Good agreement was also shown between variances and covariances estimated with different mathematical techniques, i.e. through non-orthogonal wavelet spectra and through eddy correlation methods.

High-performance wavelet engine

NASA Astrophysics Data System (ADS)

Taylor, Fred J.; Mellot, Jonathon D.; Strom, Erik; Koren, Iztok; Lewis, Michael P.

1993-11-01

Wavelet processing has shown great promise for a variety of image and signal processing applications. Wavelets are also among the most computationally expensive techniques in signal processing. It is demonstrated that a wavelet engine constructed with residue number system arithmetic elements offers significant advantages over commercially available wavelet accelerators based upon conventional arithmetic elements. Analysis is presented predicting the dynamic range requirements of the reported residue number system based wavelet accelerator.

Wavelet tree structure based speckle noise removal for optical coherence tomography

NASA Astrophysics Data System (ADS)

Yuan, Xin; Liu, Xuan; Liu, Yang

2018-02-01

We report a new speckle noise removal algorithm in optical coherence tomography (OCT). Though wavelet domain thresholding algorithms have demonstrated superior advantages in suppressing noise magnitude and preserving image sharpness in OCT, the wavelet tree structure has not been investigated in previous applications. In this work, we propose an adaptive wavelet thresholding algorithm via exploiting the tree structure in wavelet coefficients to remove the speckle noise in OCT images. The threshold for each wavelet band is adaptively selected following a special rule to retain the structure of the image across different wavelet layers. Our results demonstrate that the proposed algorithm outperforms conventional wavelet thresholding, with significant advantages in preserving image features.

An efficient algorithm for pairwise local alignment of protein interaction networks

DOE PAGES

Chen, Wenbin; Schmidt, Matthew; Tian, Wenhong; ...

2015-04-01

Recently, researchers seeking to understand, modify, and create beneficial traits in organisms have looked for evolutionarily conserved patterns of protein interactions. Their conservation likely means that the proteins of these conserved functional modules are important to the trait's expression. In this paper, we formulate the problem of identifying these conserved patterns as a graph optimization problem, and develop a fast heuristic algorithm for this problem. We compare the performance of our network alignment algorithm to that of the MaWISh algorithm [Koyuturk M, Kim Y, Topkara U, Subramaniam S, Szpankowski W, Grama A, Pairwise alignment of protein interaction networks, J Computmore » Biol 13(2): 182-199, 2006.], which bases its search algorithm on a related decision problem formulation. We find that our algorithm discovers conserved modules with a larger number of proteins in an order of magnitude less time. In conclusion, the protein sets found by our algorithm correspond to known conserved functional modules at comparable precision and recall rates as those produced by the MaWISh algorithm.« less

Finishing bacterial genome assemblies with Mix.

PubMed

Soueidan, Hayssam; Maurier, Florence; Groppi, Alexis; Sirand-Pugnet, Pascal; Tardy, Florence; Citti, Christine; Dupuy, Virginie; Nikolski, Macha

2013-01-01

Among challenges that hamper reaping the benefits of genome assembly are both unfinished assemblies and the ensuing experimental costs. First, numerous software solutions for genome de novo assembly are available, each having its advantages and drawbacks, without clear guidelines as to how to choose among them. Second, these solutions produce draft assemblies that often require a resource intensive finishing phase. In this paper we address these two aspects by developing Mix , a tool that mixes two or more draft assemblies, without relying on a reference genome and having the goal to reduce contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph where vertices represent extremities of contigs and edges represent existing alignments between these extremities. These alignment edges are used for contig extension. The resulting output assembly corresponds to a set of paths in the extension graph that maximizes the cumulative contig length. We evaluate the performance of Mix on bacterial NGS data from the GAGE-B study and apply it to newly sequenced Mycoplasma genomes. Resulting final assemblies demonstrate a significant improvement in the overall assembly quality. In particular, Mix is consistent by providing better overall quality results even when the choice is guided solely by standard assembly statistics, as is the case for de novo projects. Mix is implemented in Python and is available at https://github.com/cbib/MIX, novel data for our Mycoplasma study is available at http://services.cbib.u-bordeaux2.fr/mix/.

Wavelet-domain de-noising of OCT images of human brain malignant glioma

NASA Astrophysics Data System (ADS)

Dolganova, I. N.; Aleksandrova, P. V.; Beshplav, S.-I. T.; Chernomyrdin, N. V.; Dubyanskaya, E. N.; Goryaynov, S. A.; Kurlov, V. N.; Reshetov, I. V.; Potapov, A. A.; Tuchin, V. V.; Zaytsev, K. I.

2018-04-01

We have proposed a wavelet-domain de-noising technique for imaging of human brain malignant glioma by optical coherence tomography (OCT). It implies OCT image decomposition using the direct fast wavelet transform, thresholding of the obtained wavelet spectrum and further inverse fast wavelet transform for image reconstruction. By selecting both wavelet basis and thresholding procedure, we have found an optimal wavelet filter, which application improves differentiation of the considered brain tissue classes - i.e. malignant glioma and normal/intact tissue. Namely, it allows reducing the scattering noise in the OCT images and retaining signal decrement for each tissue class. Therefore, the observed results reveals the wavelet-domain de-noising as a prospective tool for improved characterization of biological tissue using the OCT.

Wavelet transforms as solutions of partial differential equations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zweig, G.

This is the final report of a three-year, Laboratory Directed Research and Development (LDRD) project at Los Alamos National Laboratory (LANL). Wavelet transforms are useful in representing transients whose time and frequency structure reflect the dynamics of an underlying physical system. Speech sound, pressure in turbulent fluid flow, or engine sound in automobiles are excellent candidates for wavelet analysis. This project focused on (1) methods for choosing the parent wavelet for a continuous wavelet transform in pattern recognition applications and (2) the more efficient computation of continuous wavelet transforms by understanding the relationship between discrete wavelet transforms and discretized continuousmore » wavelet transforms. The most interesting result of this research is the finding that the generalized wave equation, on which the continuous wavelet transform is based, can be used to understand phenomena that relate to the process of hearing.« less

Wavelet Transforms using VTK-m

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Shaomeng; Sewell, Christopher Meyer

2016-09-27

These are a set of slides that deal with the topics of wavelet transforms using VTK-m. First, wavelets are discussed and detailed, then VTK-m is discussed and detailed, then wavelets and VTK-m are looked at from a performance comparison, then from an accuracy comparison, and finally lessons learned, conclusion, and what is next. Lessons learned are the following: Launching worklets is expensive; Natural logic of performing 2D wavelet transform: Repeat the same 1D wavelet transform on every row, repeat the same 1D wavelet transform on every column, invoke the 1D wavelet worklet every time: num_rows x num_columns; VTK-m approach ofmore » performing 2D wavelet transform: Create a worklet for 2D that handles both rows and columns, invoke this new worklet only one time; Fast calculation, but cannot reuse 1D implementations.« less

Fast 3D shape screening of large chemical databases through alignment-recycling

PubMed Central

Fontaine, Fabien; Bolton, Evan; Borodina, Yulia; Bryant, Stephen H

2007-01-01

Background Large chemical databases require fast, efficient, and simple ways of looking for similar structures. Although such tasks are now fairly well resolved for graph-based similarity queries, they remain an issue for 3D approaches, particularly for those based on 3D shape overlays. Inspired by a recent technique developed to compare molecular shapes, we designed a hybrid methodology, alignment-recycling, that enables efficient retrieval and alignment of structures with similar 3D shapes. Results Using a dataset of more than one million PubChem compounds of limited size (< 28 heavy atoms) and flexibility (< 6 rotatable bonds), we obtained a set of a few thousand diverse structures covering entirely the 3D shape space of the conformers of the dataset. Transformation matrices gathered from the overlays between these diverse structures and the 3D conformer dataset allowed us to drastically (100-fold) reduce the CPU time required for shape overlay. The alignment-recycling heuristic produces results consistent with de novo alignment calculation, with better than 80% hit list overlap on average. Conclusion Overlay-based 3D methods are computationally demanding when searching large databases. Alignment-recycling reduces the CPU time to perform shape similarity searches by breaking the alignment problem into three steps: selection of diverse shapes to describe the database shape-space; overlay of the database conformers to the diverse shapes; and non-optimized overlay of query and database conformers using common reference shapes. The precomputation, required by the first two steps, is a significant cost of the method; however, once performed, querying is two orders of magnitude faster. Extensions and variations of this methodology, for example, to handle more flexible and larger small-molecules are discussed. PMID:17880744

Analysis of quality raw data of second generation sequencers with Quality Assessment Software.

PubMed

Ramos, Rommel Tj; Carneiro, Adriana R; Baumbach, Jan; Azevedo, Vasco; Schneider, Maria Pc; Silva, Artur

2011-04-18

Second generation technologies have advantages over Sanger; however, they have resulted in new challenges for the genome construction process, especially because of the small size of the reads, despite the high degree of coverage. Independent of the program chosen for the construction process, DNA sequences are superimposed, based on identity, to extend the reads, generating contigs; mismatches indicate a lack of homology and are not included. This process improves our confidence in the sequences that are generated. We developed Quality Assessment Software, with which one can review graphs showing the distribution of quality values from the sequencing reads. This software allow us to adopt more stringent quality standards for sequence data, based on quality-graph analysis and estimated coverage after applying the quality filter, providing acceptable sequence coverage for genome construction from short reads. Quality filtering is a fundamental step in the process of constructing genomes, as it reduces the frequency of incorrect alignments that are caused by measuring errors, which can occur during the construction process due to the size of the reads, provoking misassemblies. Application of quality filters to sequence data, using the software Quality Assessment, along with graphing analyses, provided greater precision in the definition of cutoff parameters, which increased the accuracy of genome construction.

Dynamic Bayesian wavelet transform: New methodology for extraction of repetitive transients

NASA Astrophysics Data System (ADS)

Wang, Dong; Tsui, Kwok-Leung

2017-05-01

Thanks to some recent research works, dynamic Bayesian wavelet transform as new methodology for extraction of repetitive transients is proposed in this short communication to reveal fault signatures hidden in rotating machine. The main idea of the dynamic Bayesian wavelet transform is to iteratively estimate posterior parameters of wavelet transform via artificial observations and dynamic Bayesian inference. First, a prior wavelet parameter distribution can be established by one of many fast detection algorithms, such as the fast kurtogram, the improved kurtogram, the enhanced kurtogram, the sparsogram, the infogram, continuous wavelet transform, discrete wavelet transform, wavelet packets, multiwavelets, empirical wavelet transform, empirical mode decomposition, local mean decomposition, etc.. Second, artificial observations can be constructed based on one of many metrics, such as kurtosis, the sparsity measurement, entropy, approximate entropy, the smoothness index, a synthesized criterion, etc., which are able to quantify repetitive transients. Finally, given artificial observations, the prior wavelet parameter distribution can be posteriorly updated over iterations by using dynamic Bayesian inference. More importantly, the proposed new methodology can be extended to establish the optimal parameters required by many other signal processing methods for extraction of repetitive transients.

RNA-TVcurve: a Web server for RNA secondary structure comparison based on a multi-scale similarity of its triple vector curve representation.

PubMed

Li, Ying; Shi, Xiaohu; Liang, Yanchun; Xie, Juan; Zhang, Yu; Ma, Qin

2017-01-21

RNAs have been found to carry diverse functionalities in nature. Inferring the similarity between two given RNAs is a fundamental step to understand and interpret their functional relationship. The majority of functional RNAs show conserved secondary structures, rather than sequence conservation. Those algorithms relying on sequence-based features usually have limitations in their prediction performance. Hence, integrating RNA structure features is very critical for RNA analysis. Existing algorithms mainly fall into two categories: alignment-based and alignment-free. The alignment-free algorithms of RNA comparison usually have lower time complexity than alignment-based algorithms. An alignment-free RNA comparison algorithm was proposed, in which novel numerical representations RNA-TVcurve (triple vector curve representation) of RNA sequence and corresponding secondary structure features are provided. Then a multi-scale similarity score of two given RNAs was designed based on wavelet decomposition of their numerical representation. In support of RNA mutation and phylogenetic analysis, a web server (RNA-TVcurve) was designed based on this alignment-free RNA comparison algorithm. It provides three functional modules: 1) visualization of numerical representation of RNA secondary structure; 2) detection of single-point mutation based on secondary structure; and 3) comparison of pairwise and multiple RNA secondary structures. The inputs of the web server require RNA primary sequences, while corresponding secondary structures are optional. For the primary sequences alone, the web server can compute the secondary structures using free energy minimization algorithm in terms of RNAfold tool from Vienna RNA package. RNA-TVcurve is the first integrated web server, based on an alignment-free method, to deliver a suite of RNA analysis functions, including visualization, mutation analysis and multiple RNAs structure comparison. The comparison results with two popular RNA comparison tools, RNApdist and RNAdistance, showcased that RNA-TVcurve can efficiently capture subtle relationships among RNAs for mutation detection and non-coding RNA classification. All the relevant results were shown in an intuitive graphical manner, and can be freely downloaded from this server. RNA-TVcurve, along with test examples and detailed documents, are available at: http://ml.jlu.edu.cn/tvcurve/ .

Wavelet denoising during optical coherence tomography of the prostate nerves using the complex wavelet transform.

PubMed

Chitchian, Shahab; Fiddy, Michael; Fried, Nathaniel M

2008-01-01

Preservation of the cavernous nerves during prostate cancer surgery is critical in preserving sexual function after surgery. Optical coherence tomography (OCT) of the prostate nerves has recently been studied for potential use in nerve-sparing prostate surgery. In this study, the discrete wavelet transform and complex dual-tree wavelet transform are implemented for wavelet shrinkage denoising in OCT images of the rat prostate. Applying the complex dual-tree wavelet transform provides improved results for speckle noise reduction in the OCT prostate image. Image quality metrics of the cavernous nerves and signal-to-noise ratio (SNR) were improved significantly using this complex wavelet denoising technique.

Optical phase distribution evaluation by using zero order Generalized Morse Wavelet

NASA Astrophysics Data System (ADS)

Kocahan, Özlem; Elmas, Merve Naz; Durmuş, ćaǧla; Coşkun, Emre; Tiryaki, Erhan; Özder, Serhat

2017-02-01

When determining the phase from the projected fringes by using continuous wavelet transform (CWT), selection of wavelet is an important step. A new wavelet for phase retrieval from the fringe pattern with the spatial carrier frequency in the x direction is presented. As a mother wavelet, zero order generalized Morse wavelet (GMW) is chosen because of the flexible spatial and frequency localization property, and it is exactly analytic. In this study, GMW method is explained and numerical simulations are carried out to show the validity of this technique for finding the phase distributions. Results for the Morlet and Paul wavelets are compared with the results of GMW analysis.

Comparisons between real and complex Gauss wavelet transform methods of three-dimensional shape reconstruction

NASA Astrophysics Data System (ADS)

Xu, Luopeng; Dan, Youquan; Wang, Qingyuan

2015-10-01

The continuous wavelet transform (CWT) introduces an expandable spatial and frequency window which can overcome the inferiority of localization characteristic in Fourier transform and windowed Fourier transform. The CWT method is widely applied in the non-stationary signal analysis field including optical 3D shape reconstruction with remarkable performance. In optical 3D surface measurement, the performance of CWT for optical fringe pattern phase reconstruction usually depends on the choice of wavelet function. A large kind of wavelet functions of CWT, such as Mexican Hat wavelet, Morlet wavelet, DOG wavelet, Gabor wavelet and so on, can be generated from Gauss wavelet function. However, so far, application of the Gauss wavelet transform (GWT) method (i.e. CWT with Gauss wavelet function) in optical profilometry is few reported. In this paper, the method using GWT for optical fringe pattern phase reconstruction is presented first and the comparisons between real and complex GWT methods are discussed in detail. The examples of numerical simulations are also given and analyzed. The results show that both the real GWT method along with a Hilbert transform and the complex GWT method can realize three-dimensional surface reconstruction; and the performance of reconstruction generally depends on the frequency domain appearance of Gauss wavelet functions. For the case of optical fringe pattern of large phase variation with position, the performance of real GWT is better than that of complex one due to complex Gauss series wavelets existing frequency sidelobes. Finally, the experiments are carried out and the experimental results agree well with our theoretical analysis.

Fault Analysis of Space Station DC Power Systems-Using Neural Network Adaptive Wavelets to Detect Faults

NASA Technical Reports Server (NTRS)

Momoh, James A.; Wang, Yanchun; Dolce, James L.

1997-01-01

This paper describes the application of neural network adaptive wavelets for fault diagnosis of space station power system. The method combines wavelet transform with neural network by incorporating daughter wavelets into weights. Therefore, the wavelet transform and neural network training procedure become one stage, which avoids the complex computation of wavelet parameters and makes the procedure more straightforward. The simulation results show that the proposed method is very efficient for the identification of fault locations.

Groupwise Image Registration Guided by a Dynamic Digraph of Images.

PubMed

Tang, Zhenyu; Fan, Yong

2016-04-01

For groupwise image registration, graph theoretic methods have been adopted for discovering the manifold of images to be registered so that accurate registration of images to a group center image can be achieved by aligning similar images that are linked by the shortest graph paths. However, the image similarity measures adopted to build a graph of images in the extant methods are essentially pairwise measures, not effective for capturing the groupwise similarity among multiple images. To overcome this problem, we present a groupwise image similarity measure that is built on sparse coding for characterizing image similarity among all input images and build a directed graph (digraph) of images so that similar images are connected by the shortest paths of the digraph. Following the shortest paths determined according to the digraph, images are registered to a group center image in an iterative manner by decomposing a large anatomical deformation field required to register an image to the group center image into a series of small ones between similar images. During the iterative image registration, the digraph of images evolves dynamically at each iteration step to pursue an accurate estimation of the image manifold. Moreover, an adaptive dictionary strategy is adopted in the groupwise image similarity measure to ensure fast convergence of the iterative registration procedure. The proposed method has been validated based on both simulated and real brain images, and experiment results have demonstrated that our method was more effective for learning the manifold of input images and achieved higher registration accuracy than state-of-the-art groupwise image registration methods.

Comparison between deterministic and statistical wavelet estimation methods through predictive deconvolution: Seismic to well tie example from the North Sea

NASA Astrophysics Data System (ADS)

de Macedo, Isadora A. S.; da Silva, Carolina B.; de Figueiredo, J. J. S.; Omoboya, Bode

2017-01-01

Wavelet estimation as well as seismic-to-well tie procedures are at the core of every seismic interpretation workflow. In this paper we perform a comparative study of wavelet estimation methods for seismic-to-well tie. Two approaches to wavelet estimation are discussed: a deterministic estimation, based on both seismic and well log data, and a statistical estimation, based on predictive deconvolution and the classical assumptions of the convolutional model, which provides a minimum-phase wavelet. Our algorithms, for both wavelet estimation methods introduce a semi-automatic approach to determine the optimum parameters of deterministic wavelet estimation and statistical wavelet estimation and, further, to estimate the optimum seismic wavelets by searching for the highest correlation coefficient between the recorded trace and the synthetic trace, when the time-depth relationship is accurate. Tests with numerical data show some qualitative conclusions, which are probably useful for seismic inversion and interpretation of field data, by comparing deterministic wavelet estimation and statistical wavelet estimation in detail, especially for field data example. The feasibility of this approach is verified on real seismic and well data from Viking Graben field, North Sea, Norway. Our results also show the influence of the washout zones on well log data on the quality of the well to seismic tie.

BOOK REVIEW: The Illustrated Wavelet Transform Handbook: Introductory Theory and Applications in Science, Engineering, Medicine and Finance

NASA Astrophysics Data System (ADS)

Ng, J.; Kingsbury, N. G.

2004-02-01

This book provides an overview of the theory and practice of continuous and discrete wavelet transforms. Divided into seven chapters, the first three chapters of the book are introductory, describing the various forms of the wavelet transform and their computation, while the remaining chapters are devoted to applications in fluids, engineering, medicine and miscellaneous areas. Each chapter is well introduced, with suitable examples to demonstrate key concepts. Illustrations are included where appropriate, thus adding a visual dimension to the text. A noteworthy feature is the inclusion, at the end of each chapter, of a list of further resources from the academic literature which the interested reader can consult. The first chapter is purely an introduction to the text. The treatment of wavelet transforms begins in the second chapter, with the definition of what a wavelet is. The chapter continues by defining the continuous wavelet transform and its inverse and a description of how it may be used to interrogate signals. The continuous wavelet transform is then compared to the short-time Fourier transform. Energy and power spectra with respect to scale are also discussed and linked to their frequency counterparts. Towards the end of the chapter, the two-dimensional continuous wavelet transform is introduced. Examples of how the continuous wavelet transform is computed using the Mexican hat and Morlet wavelets are provided throughout. The third chapter introduces the discrete wavelet transform, with its distinction from the discretized continuous wavelet transform having been made clear at the end of the second chapter. In the first half of the chapter, the logarithmic discretization of the wavelet function is described, leading to a discussion of dyadic grid scaling, frames, orthogonal and orthonormal bases, scaling functions and multiresolution representation. The fast wavelet transform is introduced and its computation is illustrated with an example using the Haar wavelet. The second half of the chapter groups together miscellaneous points about the discrete wavelet transform, including coefficient manipulation for signal denoising and smoothing, a description of Daubechies’ wavelets, the properties of translation invariance and biorthogonality, the two-dimensional discrete wavelet transforms and wavelet packets. The fourth chapter is dedicated to wavelet transform methods in the author’s own specialty, fluid mechanics. Beginning with a definition of wavelet-based statistical measures for turbulence, the text proceeds to describe wavelet thresholding in the analysis of fluid flows. The remainder of the chapter describes wavelet analysis of engineering flows, in particular jets, wakes, turbulence and coherent structures, and geophysical flows, including atmospheric and oceanic processes. The fifth chapter describes the application of wavelet methods in various branches of engineering, including machining, materials, dynamics and information engineering. Unlike previous chapters, this (and subsequent) chapters are styled more as literature reviews that describe the findings of other authors. The areas addressed in this chapter include: the monitoring of machining processes, the monitoring of rotating machinery, dynamical systems, chaotic systems, non-destructive testing, surface characterization and data compression. The sixth chapter continues in this vein with the attention now turned to wavelets in the analysis of medical signals. Most of the chapter is devoted to the analysis of one-dimensional signals (electrocardiogram, neural waveforms, acoustic signals etc.), although there is a small section on the analysis of two-dimensional medical images. The seventh and final chapter of the book focuses on the application of wavelets in three seemingly unrelated application areas: fractals, finance and geophysics. The treatment on wavelet methods in fractals focuses on stochastic fractals with a short section on multifractals. The treatment on finance touches on the use of wavelets by other authors in studying stock prices, commodity behaviour, market dynamics and foreign exchange rates. The treatment on geophysics covers what was omitted from the fourth chapter, namely, seismology, well logging, topographic feature analysis and the analysis of climatic data. The text concludes with an assortment of other application areas which could only be mentioned in passing. Unlike most other publications in the subject, this book does not treat wavelet transforms in a mathematically rigorous manner but rather aims to explain the mechanics of the wavelet transform in a way that is easy to understand. Consequently, it serves as an excellent overview of the subject rather than as a reference text. Keeping the mathematics to a minimum and omitting cumbersome and detailed proofs from the text, the book is best-suited to those who are new to wavelets or who want an intuitive understanding of the subject. Such an audience may include graduate students in engineering and professionals and researchers in engineering and the applied sciences.

Denoising embolic Doppler ultrasound signals using Dual Tree Complex Discrete Wavelet Transform.

PubMed

Serbes, Gorkem; Aydin, Nizamettin

2010-01-01

Early and accurate detection of asymptomatic emboli is important for monitoring of preventive therapy in stroke-prone patients. One of the problems in detection of emboli is the identification of an embolic signal caused by very small emboli. The amplitude of the embolic signal may be so small that advanced processing methods are required to distinguish these signals from Doppler signals arising from red blood cells. In this study instead of conventional discrete wavelet transform, the Dual Tree Complex Discrete Wavelet Transform was used for denoising embolic signals. Performances of both approaches were compared. Unlike the conventional discrete wavelet transform discrete complex wavelet transform is a shift invariant transform with limited redundancy. Results demonstrate that the Dual Tree Complex Discrete Wavelet Transform based denoising outperforms conventional discrete wavelet denoising. Approximately 8 dB improvement is obtained by using the Dual Tree Complex Discrete Wavelet Transform compared to the improvement provided by the conventional Discrete Wavelet Transform (less than 5 dB).

Dependence and risk assessment for oil prices and exchange rate portfolios: A wavelet based approach

NASA Astrophysics Data System (ADS)

Aloui, Chaker; Jammazi, Rania

2015-10-01

In this article, we propose a wavelet-based approach to accommodate the stylized facts and complex structure of financial data, caused by frequent and abrupt changes of markets and noises. Specifically, we show how the combination of both continuous and discrete wavelet transforms with traditional financial models helps improve portfolio's market risk assessment. In the empirical stage, three wavelet-based models (wavelet-EGARCH with dynamic conditional correlations, wavelet-copula, and wavelet-extreme value) are considered and applied to crude oil price and US dollar exchange rate data. Our findings show that the wavelet-based approach provides an effective and powerful tool for detecting extreme moments and improving the accuracy of VaR and Expected Shortfall estimates of oil-exchange rate portfolios after noise is removed from the original data.

PULSAR SIGNAL DENOISING METHOD BASED ON LAPLACE DISTRIBUTION IN NO-SUBSAMPLING WAVELET PACKET DOMAIN

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wenbo, Wang; Yanchao, Zhao; Xiangli, Wang

2016-11-01

In order to improve the denoising effect of the pulsar signal, a new denoising method is proposed in the no-subsampling wavelet packet domain based on the local Laplace prior model. First, we count the true noise-free pulsar signal’s wavelet packet coefficient distribution characteristics and construct the true signal wavelet packet coefficients’ Laplace probability density function model. Then, we estimate the denosied wavelet packet coefficients by using the noisy pulsar wavelet coefficients based on maximum a posteriori criteria. Finally, we obtain the denoisied pulsar signal through no-subsampling wavelet packet reconstruction of the estimated coefficients. The experimental results show that the proposed method performs better when calculating the pulsar time of arrival than the translation-invariant wavelet denoising method.

Wavelet entropy characterization of elevated intracranial pressure.

PubMed

Xu, Peng; Scalzo, Fabien; Bergsneider, Marvin; Vespa, Paul; Chad, Miller; Hu, Xiao

2008-01-01

Intracranial Hypertension (ICH) often occurs for those patients with traumatic brain injury (TBI), stroke, tumor, etc. Pathology of ICH is still controversial. In this work, we used wavelet entropy and relative wavelet entropy to study the difference existed between normal and hypertension states of ICP for the first time. The wavelet entropy revealed the similar findings as the approximation entropy that entropy during ICH state is smaller than that in normal state. Moreover, with wavelet entropy, we can see that ICH state has the more focused energy in the low wavelet frequency band (0-3.1 Hz) than the normal state. The relative wavelet entropy shows that the energy distribution in the wavelet bands between these two states is actually different. Based on these results, we suggest that ICH may be formed by the re-allocation of oscillation energy within brain.

Optimized graph-based mosaicking for virtual microscopy

NASA Astrophysics Data System (ADS)

Steckhan, Dirk G.; Wittenberg, Thomas

2009-02-01

Virtual microscopy has the potential to partially replace traditional microscopy. For virtualization, the slide is scanned once by a fully automatized robotic microscope and saved digitally. Typically, such a scan results in several hundreds to thousands of fields of view. Since robotic stages have positioning errors, these fields of view have to be registered locally and globally in an additional step. In this work we propose a new global mosaicking method for the creation of virtual slides based on sub-pixel exact phase correlation for local alignment in combination with Prim's minimum spanning tree algorithm for global alignment. Our algorithm allows for a robust reproduction of the original slide even in the presence of views with little to no information content. This makes it especially suitable for the mosaicking of cervical smears. These smears often exhibit large empty areas, which do not contain enough information for common stitching approaches.

PhAST: pharmacophore alignment search tool.

PubMed

Hähnke, Volker; Hofmann, Bettina; Grgat, Tomislav; Proschak, Ewgenij; Steinhilber, Dieter; Schneider, Gisbert

2009-04-15

We present a ligand-based virtual screening technique (PhAST) for rapid hit and lead structure searching in large compound databases. Molecules are represented as strings encoding the distribution of pharmacophoric features on the molecular graph. In contrast to other text-based methods using SMILES strings, we introduce a new form of text representation that describes the pharmacophore of molecules. This string representation opens the opportunity for revealing functional similarity between molecules by sequence alignment techniques in analogy to homology searching in protein or nucleic acid sequence databases. We favorably compared PhAST with other current ligand-based virtual screening methods in a retrospective analysis using the BEDROC metric. In a prospective application, PhAST identified two novel inhibitors of 5-lipoxygenase product formation with minimal experimental effort. This outcome demonstrates the applicability of PhAST to drug discovery projects and provides an innovative concept of sequence-based compound screening with substantial scaffold hopping potential. 2008 Wiley Periodicals, Inc.

Iterated oversampled filter banks and wavelet frames

NASA Astrophysics Data System (ADS)

Selesnick, Ivan W.; Sendur, Levent

2000-12-01

This paper takes up the design of wavelet tight frames that are analogous to Daubechies orthonormal wavelets - that is, the design of minimal length wavelet filters satisfying certain polynomial properties, but now in the oversampled case. The oversampled dyadic DWT considered in this paper is based on a single scaling function and tow distinct wavelets. Having more wavelets than necessary gives a closer spacing between adjacent wavelets within the same scale. As a result, the transform is nearly shift-invariant, and can be used to improve denoising. Because the associated time- frequency lattice preserves the dyadic structure of the critically sampled DWT it can be used with tree-based denoising algorithms that exploit parent-child correlation.

MISTICA: Minimum Spanning Tree-based Coarse Image Alignment for Microscopy Image Sequences

PubMed Central

Ray, Nilanjan; McArdle, Sara; Ley, Klaus; Acton, Scott T.

2016-01-01

Registration of an in vivo microscopy image sequence is necessary in many significant studies, including studies of atherosclerosis in large arteries and the heart. Significant cardiac and respiratory motion of the living subject, occasional spells of focal plane changes, drift in the field of view, and long image sequences are the principal roadblocks. The first step in such a registration process is the removal of translational and rotational motion. Next, a deformable registration can be performed. The focus of our study here is to remove the translation and/or rigid body motion that we refer to here as coarse alignment. The existing techniques for coarse alignment are unable to accommodate long sequences often consisting of periods of poor quality images (as quantified by a suitable perceptual measure). Many existing methods require the user to select an anchor image to which other images are registered. We propose a novel method for coarse image sequence alignment based on minimum weighted spanning trees (MISTICA) that overcomes these difficulties. The principal idea behind MISTICA is to re-order the images in shorter sequences, to demote nonconforming or poor quality images in the registration process, and to mitigate the error propagation. The anchor image is selected automatically making MISTICA completely automated. MISTICA is computationally efficient. It has a single tuning parameter that determines graph width, which can also be eliminated by way of additional computation. MISTICA outperforms existing alignment methods when applied to microscopy image sequences of mouse arteries. PMID:26415193

MISTICA: Minimum Spanning Tree-Based Coarse Image Alignment for Microscopy Image Sequences.

PubMed

Ray, Nilanjan; McArdle, Sara; Ley, Klaus; Acton, Scott T

2016-11-01

Registration of an in vivo microscopy image sequence is necessary in many significant studies, including studies of atherosclerosis in large arteries and the heart. Significant cardiac and respiratory motion of the living subject, occasional spells of focal plane changes, drift in the field of view, and long image sequences are the principal roadblocks. The first step in such a registration process is the removal of translational and rotational motion. Next, a deformable registration can be performed. The focus of our study here is to remove the translation and/or rigid body motion that we refer to here as coarse alignment. The existing techniques for coarse alignment are unable to accommodate long sequences often consisting of periods of poor quality images (as quantified by a suitable perceptual measure). Many existing methods require the user to select an anchor image to which other images are registered. We propose a novel method for coarse image sequence alignment based on minimum weighted spanning trees (MISTICA) that overcomes these difficulties. The principal idea behind MISTICA is to reorder the images in shorter sequences, to demote nonconforming or poor quality images in the registration process, and to mitigate the error propagation. The anchor image is selected automatically making MISTICA completely automated. MISTICA is computationally efficient. It has a single tuning parameter that determines graph width, which can also be eliminated by the way of additional computation. MISTICA outperforms existing alignment methods when applied to microscopy image sequences of mouse arteries.

GALAHAD: 1. Pharmacophore identification by hypermolecular alignment of ligands in 3D

NASA Astrophysics Data System (ADS)

Richmond, Nicola J.; Abrams, Charlene A.; Wolohan, Philippa R. N.; Abrahamian, Edmond; Willett, Peter; Clark, Robert D.

2006-09-01

Alignment of multiple ligands based on shared pharmacophoric and pharmacosteric features is a long-recognized challenge in drug discovery and development. This is particularly true when the spatial overlap between structures is incomplete, in which case no good template molecule is likely to exist. Pair-wise rigid ligand alignment based on linear assignment (the LAMDA algorithm) has the potential to address this problem (Richmond et al. in J Mol Graph Model 23:199-209, 2004). Here we present the version of LAMDA embodied in the GALAHAD program, which carries out multi-way alignments by iterative construction of hypermolecules that retain the aggregate as well as the individual attributes of the ligands. We have also generalized the cost function from being purely atom-based to being one that operates on ionic, hydrogen bonding, hydrophobic and steric features. Finally, we have added the ability to generate useful partial-match 3D search queries from the hypermolecules obtained. By running frozen conformations through the GALAHAD program, one can utilize the extended version of LAMDA to generate pharmacophores and pharmacosteres that agree well with crystal structure alignments for a range of literature datasets, with minor adjustments of the default parameters generating even better models. Allowing for inclusion of partial match constraints in the queries yields pharmacophores that are consistently a superset of full-match pharmacophores identified in previous analyses, with the additional features representing points of potentially beneficial interaction with the target.

Acoustical Emission Source Location in Thin Rods Through Wavelet Detail Crosscorrelation

DTIC Science & Technology

1998-03-01

NAVAL POSTGRADUATE SCHOOL Monterey, California THESIS ACOUSTICAL EMISSION SOURCE LOCATION IN THIN RODS THROUGH WAVELET DETAIL CROSSCORRELATION...ACOUSTICAL EMISSION SOURCE LOCATION IN THIN RODS THROUGH WAVELET DETAIL CROSSCORRELATION 6. AUTHOR(S) Jerauld, Joseph G. 5. FUNDING NUMBERS Grant...frequency characteristics of Wavelet Analysis. Software implementation now enables the exploration of the Wavelet Transform to identify the time of

Comparative Analysis of Haar and Daubechies Wavelet for Hyper Spectral Image Classification

NASA Astrophysics Data System (ADS)

Sharif, I.; Khare, S.

2014-11-01

With the number of channels in the hundreds instead of in the tens Hyper spectral imagery possesses much richer spectral information than multispectral imagery. The increased dimensionality of such Hyper spectral data provides a challenge to the current technique for analyzing data. Conventional classification methods may not be useful without dimension reduction pre-processing. So dimension reduction has become a significant part of Hyper spectral image processing. This paper presents a comparative analysis of the efficacy of Haar and Daubechies wavelets for dimensionality reduction in achieving image classification. Spectral data reduction using Wavelet Decomposition could be useful because it preserves the distinction among spectral signatures. Daubechies wavelets optimally capture the polynomial trends while Haar wavelet is discontinuous and resembles a step function. The performance of these wavelets are compared in terms of classification accuracy and time complexity. This paper shows that wavelet reduction has more separate classes and yields better or comparable classification accuracy. In the context of the dimensionality reduction algorithm, it is found that the performance of classification of Daubechies wavelets is better as compared to Haar wavelet while Daubechies takes more time compare to Haar wavelet. The experimental results demonstrate the classification system consistently provides over 84% classification accuracy.

Wavelet median denoising of ultrasound images

NASA Astrophysics Data System (ADS)

Macey, Katherine E.; Page, Wyatt H.

2002-05-01

Ultrasound images are contaminated with both additive and multiplicative noise, which is modeled by Gaussian and speckle noise respectively. Distinguishing small features such as fallopian tubes in the female genital tract in the noisy environment is problematic. A new method for noise reduction, Wavelet Median Denoising, is presented. Wavelet Median Denoising consists of performing a standard noise reduction technique, median filtering, in the wavelet domain. The new method is tested on 126 images, comprised of 9 original images each with 14 levels of Gaussian or speckle noise. Results for both separable and non-separable wavelets are evaluated, relative to soft-thresholding in the wavelet domain, using the signal-to-noise ratio and subjective assessment. The performance of Wavelet Median Denoising is comparable to that of soft-thresholding. Both methods are more successful in removing Gaussian noise than speckle noise. Wavelet Median Denoising outperforms soft-thresholding for a larger number of cases of speckle noise reduction than of Gaussian noise reduction. Noise reduction is more successful using non-separable wavelets than separable wavelets. When both methods are applied to ultrasound images obtained from a phantom of the female genital tract a small improvement is seen; however, a substantial improvement is required prior to clinical use.

Wavelet detection of singularities in the presence of fractal noise

NASA Astrophysics Data System (ADS)

Noel, Steven E.; Gohel, Yogesh J.; Szu, Harold H.

1997-04-01

Here we detect singularities with generalized quadrature processing using the recently developed Hermitian Hat wavelet. Our intended application is radar target detection for the optimal fuzzing of ship self-defense munitions. We first develop a wavelet-based fractal noise model to represent sea clutter. We then investigate wavelet shrinkage as a way to reduce and smooth the noise before attempting wavelet detection. Finally, we use the complex phase of the Hermitian Hat wavelet to detect a simulated target singularity in the presence of our fractal noise.

Double Density Dual Tree Discrete Wavelet Transform implementation for Degraded Image Enhancement

NASA Astrophysics Data System (ADS)

Vimala, C.; Aruna Priya, P.

2018-04-01

Wavelet transform is a main tool for image processing applications in modern existence. A Double Density Dual Tree Discrete Wavelet Transform is used and investigated for image denoising. Images are considered for the analysis and the performance is compared with discrete wavelet transform and the Double Density DWT. Peak Signal to Noise Ratio values and Root Means Square error are calculated in all the three wavelet techniques for denoised images and the performance has evaluated. The proposed techniques give the better performance when comparing other two wavelet techniques.

Daily water level forecasting using wavelet decomposition and artificial intelligence techniques

NASA Astrophysics Data System (ADS)

Seo, Youngmin; Kim, Sungwon; Kisi, Ozgur; Singh, Vijay P.

2015-01-01

Reliable water level forecasting for reservoir inflow is essential for reservoir operation. The objective of this paper is to develop and apply two hybrid models for daily water level forecasting and investigate their accuracy. These two hybrid models are wavelet-based artificial neural network (WANN) and wavelet-based adaptive neuro-fuzzy inference system (WANFIS). Wavelet decomposition is employed to decompose an input time series into approximation and detail components. The decomposed time series are used as inputs to artificial neural networks (ANN) and adaptive neuro-fuzzy inference system (ANFIS) for WANN and WANFIS models, respectively. Based on statistical performance indexes, the WANN and WANFIS models are found to produce better efficiency than the ANN and ANFIS models. WANFIS7-sym10 yields the best performance among all other models. It is found that wavelet decomposition improves the accuracy of ANN and ANFIS. This study evaluates the accuracy of the WANN and WANFIS models for different mother wavelets, including Daubechies, Symmlet and Coiflet wavelets. It is found that the model performance is dependent on input sets and mother wavelets, and the wavelet decomposition using mother wavelet, db10, can further improve the efficiency of ANN and ANFIS models. Results obtained from this study indicate that the conjunction of wavelet decomposition and artificial intelligence models can be a useful tool for accurate forecasting daily water level and can yield better efficiency than the conventional forecasting models.

Multi-scale structural community organisation of the human genome.

PubMed

Boulos, Rasha E; Tremblay, Nicolas; Arneodo, Alain; Borgnat, Pierre; Audit, Benjamin

2017-04-11

Structural interaction frequency matrices between all genome loci are now experimentally achievable thanks to high-throughput chromosome conformation capture technologies. This ensues a new methodological challenge for computational biology which consists in objectively extracting from these data the structural motifs characteristic of genome organisation. We deployed the fast multi-scale community mining algorithm based on spectral graph wavelets to characterise the networks of intra-chromosomal interactions in human cell lines. We observed that there exist structural domains of all sizes up to chromosome length and demonstrated that the set of structural communities forms a hierarchy of chromosome segments. Hence, at all scales, chromosome folding predominantly involves interactions between neighbouring sites rather than the formation of links between distant loci. Multi-scale structural decomposition of human chromosomes provides an original framework to question structural organisation and its relationship to functional regulation across the scales. By construction the proposed methodology is independent of the precise assembly of the reference genome and is thus directly applicable to genomes whose assembly is not fully determined.

Wavelet transform: fundamentals, applications, and implementation using acousto-optic correlators

NASA Astrophysics Data System (ADS)

DeCusatis, Casimer M.; Koay, J.; Litynski, Daniel M.; Das, Pankaj K.

1995-10-01

In recent years there has been a great deal of interest in the use of wavelets to supplement or replace conventional Fourier transform signal processing. This paper provides a review of wavelet transforms for signal processing applications, and discusses several emerging applications which benefit from the advantages of wavelets. The wavelet transform can be implemented as an acousto-optic correlator; perfect reconstruction of digital signals may also be achieved using acousto-optic finite impulse response filter banks. Acousto-optic image correlators are discussed as a potential implementation of the wavelet transform, since a 1D wavelet filter bank may be encoded as a 2D image. We discuss applications of the wavelet transform including nondestructive testing of materials, biomedical applications in the analysis of EEG signals, and interference excision in spread spectrum communication systems. Computer simulations and experimental results for these applications are also provided.

The application of super wavelet finite element on temperature-pressure coupled field simulation of LPG tank under jet fire

NASA Astrophysics Data System (ADS)

Zhao, Bin

2015-02-01

Temperature-pressure coupled field analysis of liquefied petroleum gas (LPG) tank under jet fire can offer theoretical guidance for preventing the fire accidents of LPG tank, the application of super wavelet finite element on it is studied in depth. First, review of related researches on heat transfer analysis of LPG tank under fire and super wavelet are carried out. Second, basic theory of super wavelet transform is studied. Third, the temperature-pressure coupled model of gas phase and liquid LPG under jet fire is established based on the equation of state, the VOF model and the RNG k-ɛ model. Then the super wavelet finite element formulation is constructed using the super wavelet scale function as interpolating function. Finally, the simulation is carried out, and results show that the super wavelet finite element method has higher computing precision than wavelet finite element method.

Wavelets

NASA Astrophysics Data System (ADS)

Strang, Gilbert

1994-06-01

Several methods are compared that are used to analyze and synthesize a signal. Three ways are mentioned to transform a symphony: into cosine waves (Fourier transform), into pieces of cosines (short-time Fourier transform), and into wavelets (little waves that start and stop). Choosing the best basis, higher dimensions, fast wavelet transform, and Daubechies wavelets are discussed. High-definition television is described. The use of wavelets in identifying fingerprints in the future is related.

Wavelet based free-form deformations for nonrigid registration

NASA Astrophysics Data System (ADS)

Sun, Wei; Niessen, Wiro J.; Klein, Stefan

2014-03-01

In nonrigid registration, deformations may take place on the coarse and fine scales. For the conventional B-splines based free-form deformation (FFD) registration, these coarse- and fine-scale deformations are all represented by basis functions of a single scale. Meanwhile, wavelets have been proposed as a signal representation suitable for multi-scale problems. Wavelet analysis leads to a unique decomposition of a signal into its coarse- and fine-scale components. Potentially, this could therefore be useful for image registration. In this work, we investigate whether a wavelet-based FFD model has advantages for nonrigid image registration. We use a B-splines based wavelet, as defined by Cai and Wang.1 This wavelet is expressed as a linear combination of B-spline basis functions. Derived from the original B-spline function, this wavelet is smooth, differentiable, and compactly supported. The basis functions of this wavelet are orthogonal across scales in Sobolev space. This wavelet was previously used for registration in computer vision, in 2D optical flow problems,2 but it was not compared with the conventional B-spline FFD in medical image registration problems. An advantage of choosing this B-splines based wavelet model is that the space of allowable deformation is exactly equivalent to that of the traditional B-spline. The wavelet transformation is essentially a (linear) reparameterization of the B-spline transformation model. Experiments on 10 CT lung and 18 T1-weighted MRI brain datasets show that wavelet based registration leads to smoother deformation fields than traditional B-splines based registration, while achieving better accuracy.

Photoacoustic signals denoising of the glucose aqueous solutions using an improved wavelet threshold method

NASA Astrophysics Data System (ADS)

Ren, Zhong; Liu, Guodong; Xiong, Zhihua

2016-10-01

The photoacoustic signals denoising of glucose is one of most important steps in the quality identification of the fruit because the real-time photoacoustic singals of glucose are easily interfered by all kinds of noises. To remove the noises and some useless information, an improved wavelet threshld function were proposed. Compared with the traditional wavelet hard and soft threshold functions, the improved wavelet threshold function can overcome the pseudo-oscillation effect of the denoised photoacoustic signals due to the continuity of the improved wavelet threshold function, and the error between the denoised signals and the original signals can be decreased. To validate the feasibility of the improved wavelet threshold function denoising, the denoising simulation experiments based on MATLAB programmimg were performed. In the simulation experiments, the standard test signal was used, and three different denoising methods were used and compared with the improved wavelet threshold function. The signal-to-noise ratio (SNR) and the root-mean-square error (RMSE) values were used to evaluate the performance of the improved wavelet threshold function denoising. The experimental results demonstrate that the SNR value of the improved wavelet threshold function is largest and the RMSE value is lest, which fully verifies that the improved wavelet threshold function denoising is feasible. Finally, the improved wavelet threshold function denoising was used to remove the noises of the photoacoustic signals of the glucose solutions. The denoising effect is also very good. Therefore, the improved wavelet threshold function denoising proposed by this paper, has a potential value in the field of denoising for the photoacoustic singals.

Evaluation of the Use of Second Generation Wavelets in the Coherent Vortex Simulation Approach

NASA Technical Reports Server (NTRS)

Goldstein, D. E.; Vasilyev, O. V.; Wray, A. A.; Rogallo, R. S.

2000-01-01

The objective of this study is to investigate the use of the second generation bi-orthogonal wavelet transform for the field decomposition in the Coherent Vortex Simulation of turbulent flows. The performances of the bi-orthogonal second generation wavelet transform and the orthogonal wavelet transform using Daubechies wavelets with the same number of vanishing moments are compared in a priori tests using a spectral direct numerical simulation (DNS) database of isotropic turbulence fields: 256(exp 3) and 512(exp 3) DNS of forced homogeneous turbulence (Re(sub lambda) = 168) and 256(exp 3) and 512(exp 3) DNS of decaying homogeneous turbulence (Re(sub lambda) = 55). It is found that bi-orthogonal second generation wavelets can be used for coherent vortex extraction. The results of a priori tests indicate that second generation wavelets have better compression and the residual field is closer to Gaussian. However, it was found that the use of second generation wavelets results in an integral length scale for the incoherent part that is larger than that derived from orthogonal wavelets. A way of dealing with this difficulty is suggested.

Enhancement of Signal-to-noise Ratio in Natural-source Transient Magnetotelluric Data with Wavelet Transform

NASA Astrophysics Data System (ADS)

Zhang, Y.; Paulson, K. V.

For audio-frequency magnetotelluric surveys where the signals are lightning-stroke transients, the conventional Fourier transform method often fails to produce a high quality impedance tensor. An alternative approach is to use the wavelet transform method which is capable of localizing target information simultaneously in both the temporal and frequency domains. Unlike Fourier analysis that yields an average amplitude and phase, the wavelet transform produces an instantaneous estimate of the amplitude and phase of a signal. In this paper a complex well-localized wavelet, the Morlet wavelet, has been used to transform and analyze audio-frequency magnetotelluric data. With the Morlet wavelet, the magnetotelluric impedance tensor can be computed directly in the wavelet transform domain. The lightning-stroke transients are easily identified on the dilation-translation plane. Choosing those wavelet transform values where the signals are located, a higher signal-to-noise ratio estimation of the impedance tensor can be obtained. In a test using real data, the wavelet transform showed a significant improvement in the signal-to-noise ratio over the conventional Fourier transform.

Wavelet SVM in Reproducing Kernel Hilbert Space for hyperspectral remote sensing image classification

NASA Astrophysics Data System (ADS)

Du, Peijun; Tan, Kun; Xing, Xiaoshi

2010-12-01

Combining Support Vector Machine (SVM) with wavelet analysis, we constructed wavelet SVM (WSVM) classifier based on wavelet kernel functions in Reproducing Kernel Hilbert Space (RKHS). In conventional kernel theory, SVM is faced with the bottleneck of kernel parameter selection which further results in time-consuming and low classification accuracy. The wavelet kernel in RKHS is a kind of multidimensional wavelet function that can approximate arbitrary nonlinear functions. Implications on semiparametric estimation are proposed in this paper. Airborne Operational Modular Imaging Spectrometer II (OMIS II) hyperspectral remote sensing image with 64 bands and Reflective Optics System Imaging Spectrometer (ROSIS) data with 115 bands were used to experiment the performance and accuracy of the proposed WSVM classifier. The experimental results indicate that the WSVM classifier can obtain the highest accuracy when using the Coiflet Kernel function in wavelet transform. In contrast with some traditional classifiers, including Spectral Angle Mapping (SAM) and Minimum Distance Classification (MDC), and SVM classifier using Radial Basis Function kernel, the proposed wavelet SVM classifier using the wavelet kernel function in Reproducing Kernel Hilbert Space is capable of improving classification accuracy obviously.

Representation and design of wavelets using unitary circuits

NASA Astrophysics Data System (ADS)

Evenbly, Glen; White, Steven R.

2018-05-01

The representation of discrete, compact wavelet transformations (WTs) as circuits of local unitary gates is discussed. We employ a similar formalism as used in the multiscale representation of quantum many-body wave functions using unitary circuits, further cementing the relation established in the literature between classical and quantum multiscale methods. An algorithm for constructing the circuit representation of known orthogonal, dyadic, discrete WTs is presented, and the explicit representation for Daubechies wavelets, coiflets, and symlets is provided. Furthermore, we demonstrate the usefulness of the circuit formalism in designing WTs, including various classes of symmetric wavelets and multiwavelets, boundary wavelets, and biorthogonal wavelets.

Parallel object-oriented, denoising system using wavelet multiresolution analysis

DOEpatents

Kamath, Chandrika; Baldwin, Chuck H.; Fodor, Imola K.; Tang, Nu A.

2005-04-12

The present invention provides a data de-noising system utilizing processors and wavelet denoising techniques. Data is read and displayed in different formats. The data is partitioned into regions and the regions are distributed onto the processors. Communication requirements are determined among the processors according to the wavelet denoising technique and the partitioning of the data. The data is transforming onto different multiresolution levels with the wavelet transform according to the wavelet denoising technique, the communication requirements, and the transformed data containing wavelet coefficients. The denoised data is then transformed into its original reading and displaying data format.

F-wave decomposition for time of arrival profile estimation.

PubMed

Han, Zhixiu; Kong, Xuan

2007-01-01

F-waves are distally recorded muscle responses that result from "backfiring" of motor neurons following stimulation of peripheral nerves. Each F-wave response is a superposition of several motor unit responses (F-wavelets). Initial deflection of the earliest F-wavelet defines the traditional F-wave latency (FWL) and earlier F-wavelet may mask F-wavelets traveling along slower (and possibly diseased) fibers. Unmasking the time of arrival (TOA) of late F-wavelets could improve the diagnostic value of the F-waves. An algorithm for F-wavelet decomposition is presented, followed by results of experimental data analysis.

EEG analysis using wavelet-based information tools.

PubMed

Rosso, O A; Martin, M T; Figliola, A; Keller, K; Plastino, A

2006-06-15

Wavelet-based informational tools for quantitative electroencephalogram (EEG) record analysis are reviewed. Relative wavelet energies, wavelet entropies and wavelet statistical complexities are used in the characterization of scalp EEG records corresponding to secondary generalized tonic-clonic epileptic seizures. In particular, we show that the epileptic recruitment rhythm observed during seizure development is well described in terms of the relative wavelet energies. In addition, during the concomitant time-period the entropy diminishes while complexity grows. This is construed as evidence supporting the conjecture that an epileptic focus, for this kind of seizures, triggers a self-organized brain state characterized by both order and maximal complexity.

Use of the wavelet transform to investigate differences in brain PET images between patient groups

NASA Astrophysics Data System (ADS)

Ruttimann, Urs E.; Unser, Michael A.; Rio, Daniel E.; Rawlings, Robert R.

1993-06-01

Suitability of the wavelet transform was studied for the analysis of glucose utilization differences between subject groups as displayed in PET images. To strengthen statistical inference, it was of particular interest investigating the tradeoff between signal localization and image decomposition into uncorrelated components. This tradeoff is shown to be controlled by wavelet regularity, with the optimal compromise attained by third-order orthogonal spline wavelets. Testing of the ensuing wavelet coefficients identified only about 1.5% as statistically different (p < .05) from noise, which then served to resynthesize the difference images by the inverse wavelet transform. The resulting images displayed relatively uniform, noise-free regions of significant differences with, due to the good localization maintained by the wavelets, very little reconstruction artifacts.

Analysis of autostereoscopic three-dimensional images using multiview wavelets.

PubMed

Saveljev, Vladimir; Palchikova, Irina

2016-08-10

We propose that multiview wavelets can be used in processing multiview images. The reference functions for the synthesis/analysis of multiview images are described. The synthesized binary images were observed experimentally as three-dimensional visual images. The symmetric multiview B-spline wavelets are proposed. The locations recognized in the continuous wavelet transform correspond to the layout of the test objects. The proposed wavelets can be applied to the multiview, integral, and plenoptic images.

Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm.

PubMed

Gibbons, Theodore R; Mount, Stephen M; Cooper, Endymion D; Delwiche, Charles F

2015-07-10

Clustering protein sequences according to inferred homology is a fundamental step in the analysis of many large data sets. Since the publication of the Markov Clustering (MCL) algorithm in 2002, it has been the centerpiece of several popular applications. Each of these approaches generates an undirected graph that represents sequences as nodes connected to each other by edges weighted with a BLAST-based metric. MCL is then used to infer clusters of homologous proteins by analyzing these graphs. The various approaches differ only by how they weight the edges, yet there has been very little direct examination of the relative performance of alternative edge-weighting metrics. This study compares the performance of four BLAST-based edge-weighting metrics: the bit score, bit score ratio (BSR), bit score over anchored length (BAL), and negative common log of the expectation value (NLE). Performance is tested using the Extended CEGMA KOGs (ECK) database, which we introduce here. All metrics performed similarly when analyzing full-length sequences, but dramatic differences emerged as progressively larger fractions of the test sequences were split into fragments. The BSR and BAL successfully rescued subsets of clusters by strengthening certain types of alignments between fragmented sequences, but also shifted the largest correct scores down near the range of scores generated from spurious alignments. This penalty outweighed the benefits in most test cases, and was greatly exacerbated by increasing the MCL inflation parameter, making these metrics less robust than the bit score or the more popular NLE. Notably, the bit score performed as well or better than the other three metrics in all scenarios. The results provide a strong case for use of the bit score, which appears to offer equivalent or superior performance to the more popular NLE. The insight that MCL-based clustering methods can be improved using a more tractable edge-weighting metric will greatly simplify future implementations. We demonstrate this with our own minimalist Python implementation: Porthos, which uses only standard libraries and can process a graph with 25 m + edges connecting the 60 k + KOG sequences in half a minute using less than half a gigabyte of memory.

Value-at-risk estimation with wavelet-based extreme value theory: Evidence from emerging markets

NASA Astrophysics Data System (ADS)

Cifter, Atilla

2011-06-01

This paper introduces wavelet-based extreme value theory (EVT) for univariate value-at-risk estimation. Wavelets and EVT are combined for volatility forecasting to estimate a hybrid model. In the first stage, wavelets are used as a threshold in generalized Pareto distribution, and in the second stage, EVT is applied with a wavelet-based threshold. This new model is applied to two major emerging stock markets: the Istanbul Stock Exchange (ISE) and the Budapest Stock Exchange (BUX). The relative performance of wavelet-based EVT is benchmarked against the Riskmetrics-EWMA, ARMA-GARCH, generalized Pareto distribution, and conditional generalized Pareto distribution models. The empirical results show that the wavelet-based extreme value theory increases predictive performance of financial forecasting according to number of violations and tail-loss tests. The superior forecasting performance of the wavelet-based EVT model is also consistent with Basel II requirements, and this new model can be used by financial institutions as well.

iSAP: Interactive Sparse Astronomical Data Analysis Packages

NASA Astrophysics Data System (ADS)

Fourt, O.; Starck, J.-L.; Sureau, F.; Bobin, J.; Moudden, Y.; Abrial, P.; Schmitt, J.

2013-03-01

iSAP consists of three programs, written in IDL, which together are useful for spherical data analysis. MR/S (MultiResolution on the Sphere) contains routines for wavelet, ridgelet and curvelet transform on the sphere, and applications such denoising on the sphere using wavelets and/or curvelets, Gaussianity tests and Independent Component Analysis on the Sphere. MR/S has been designed for the PLANCK project, but can be used for many other applications. SparsePol (Polarized Spherical Wavelets and Curvelets) has routines for polarized wavelet, polarized ridgelet and polarized curvelet transform on the sphere, and applications such denoising on the sphere using wavelets and/or curvelets, Gaussianity tests and blind source separation on the Sphere. SparsePol has been designed for the PLANCK project. MS-VSTS (Multi-Scale Variance Stabilizing Transform on the Sphere), designed initially for the FERMI project, is useful for spherical mono-channel and multi-channel data analysis when the data are contaminated by a Poisson noise. It contains routines for wavelet/curvelet denoising, wavelet deconvolution, multichannel wavelet denoising and deconvolution.

Analysis on Behaviour of Wavelet Coefficient during Fault Occurrence in Transformer

NASA Astrophysics Data System (ADS)

Sreewirote, Bancha; Ngaopitakkul, Atthapol

2018-03-01

The protection system for transformer has play significant role in avoiding severe damage to equipment when disturbance occur and ensure overall system reliability. One of the methodology that widely used in protection scheme and algorithm is discrete wavelet transform. However, characteristic of coefficient under fault condition must be analyzed to ensure its effectiveness. So, this paper proposed study and analysis on wavelet coefficient characteristic when fault occur in transformer in both high- and low-frequency component from discrete wavelet transform. The effect of internal and external fault on wavelet coefficient of both fault and normal phase has been taken into consideration. The fault signal has been simulate using transmission connected to transformer experimental setup on laboratory level that modelled after actual system. The result in term of wavelet coefficient shown a clearly differentiate between wavelet characteristic in both high and low frequency component that can be used to further design and improve detection and classification algorithm that based on discrete wavelet transform methodology in the future.

Adjusting Wavelet-based Multiresolution Analysis Boundary Conditions for Robust Long-term Streamflow Forecasting Model

NASA Astrophysics Data System (ADS)

Maslova, I.; Ticlavilca, A. M.; McKee, M.

2012-12-01

There has been an increased interest in wavelet-based streamflow forecasting models in recent years. Often overlooked in this approach are the circularity assumptions of the wavelet transform. We propose a novel technique for minimizing the wavelet decomposition boundary condition effect to produce long-term, up to 12 months ahead, forecasts of streamflow. A simulation study is performed to evaluate the effects of different wavelet boundary rules using synthetic and real streamflow data. A hybrid wavelet-multivariate relevance vector machine model is developed for forecasting the streamflow in real-time for Yellowstone River, Uinta Basin, Utah, USA. The inputs of the model utilize only the past monthly streamflow records. They are decomposed into components formulated in terms of wavelet multiresolution analysis. It is shown that the model model accuracy can be increased by using the wavelet boundary rule introduced in this study. This long-term streamflow modeling and forecasting methodology would enable better decision-making and managing water availability risk.

The 4D hyperspherical diffusion wavelet: A new method for the detection of localized anatomical variation.

PubMed

Hosseinbor, Ameer Pasha; Kim, Won Hwa; Adluru, Nagesh; Acharya, Amit; Vorperian, Houri K; Chung, Moo K

2014-01-01

Recently, the HyperSPHARM algorithm was proposed to parameterize multiple disjoint objects in a holistic manner using the 4D hyperspherical harmonics. The HyperSPHARM coefficients are global; they cannot be used to directly infer localized variations in signal. In this paper, we present a unified wavelet framework that links Hyper-SPHARM to the diffusion wavelet transform. Specifically, we will show that the HyperSPHARM basis forms a subset of a wavelet-based multiscale representation of surface-based signals. This wavelet, termed the hyperspherical diffusion wavelet, is a consequence of the equivalence of isotropic heat diffusion smoothing and the diffusion wavelet transform on the hypersphere. Our framework allows for the statistical inference of highly localized anatomical changes, which we demonstrate in the first-ever developmental study on the hyoid bone investigating gender and age effects. We also show that the hyperspherical wavelet successfully picks up group-wise differences that are barely detectable using SPHARM.

The 4D Hyperspherical Diffusion Wavelet: A New Method for the Detection of Localized Anatomical Variation

PubMed Central

Hosseinbor, A. Pasha; Kim, Won Hwa; Adluru, Nagesh; Acharya, Amit; Vorperian, Houri K.; Chung, Moo K.

2014-01-01

Recently, the HyperSPHARM algorithm was proposed to parameterize multiple disjoint objects in a holistic manner using the 4D hyperspherical harmonics. The HyperSPHARM coefficients are global; they cannot be used to directly infer localized variations in signal. In this paper, we present a unified wavelet framework that links HyperSPHARM to the diffusion wavelet transform. Specifically, we will show that the HyperSPHARM basis forms a subset of a wavelet-based multiscale representation of surface-based signals. This wavelet, termed the hyperspherical diffusion wavelet, is a consequence of the equivalence of isotropic heat diffusion smoothing and the diffusion wavelet transform on the hypersphere. Our framework allows for the statistical inference of highly localized anatomical changes, which we demonstrate in the firstever developmental study on the hyoid bone investigating gender and age effects. We also show that the hyperspherical wavelet successfully picks up group-wise differences that are barely detectable using SPHARM. PMID:25320783

Wavelet transform analysis of transient signals: the seismogram and the electrocardiogram

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anant, K.S.

1997-06-01

In this dissertation I quantitatively demonstrate how the wavelet transform can be an effective mathematical tool for the analysis of transient signals. The two key signal processing applications of the wavelet transform, namely feature identification and representation (i.e., compression), are shown by solving important problems involving the seismogram and the electrocardiogram. The seismic feature identification problem involved locating in time the P and S phase arrivals. Locating these arrivals accurately (particularly the S phase) has been a constant issue in seismic signal processing. In Chapter 3, I show that the wavelet transform can be used to locate both the Pmore » as well as the S phase using only information from single station three-component seismograms. This is accomplished by using the basis function (wave-let) of the wavelet transform as a matching filter and by processing information across scales of the wavelet domain decomposition. The `pick` time results are quite promising as compared to analyst picks. The representation application involved the compression of the electrocardiogram which is a recording of the electrical activity of the heart. Compression of the electrocardiogram is an important problem in biomedical signal processing due to transmission and storage limitations. In Chapter 4, I develop an electrocardiogram compression method that applies vector quantization to the wavelet transform coefficients. The best compression results were obtained by using orthogonal wavelets, due to their ability to represent a signal efficiently. Throughout this thesis the importance of choosing wavelets based on the problem at hand is stressed. In Chapter 5, I introduce a wavelet design method that uses linear prediction in order to design wavelets that are geared to the signal or feature being analyzed. The use of these designed wavelets in a test feature identification application led to positive results. The methods developed in this thesis; the feature identification methods of Chapter 3, the compression methods of Chapter 4, as well as the wavelet design methods of Chapter 5, are general enough to be easily applied to other transient signals.« less

Islanding detection technique using wavelet energy in grid-connected PV system

NASA Astrophysics Data System (ADS)

Kim, Il Song

2016-08-01

This paper proposes a new islanding detection method using wavelet energy in a grid-connected photovoltaic system. The method detects spectral changes in the higher-frequency components of the point of common coupling voltage and obtains wavelet coefficients by multilevel wavelet analysis. The autocorrelation of the wavelet coefficients can clearly identify islanding detection, even in the variations of the grid voltage harmonics during normal operating conditions. The advantage of the proposed method is that it can detect islanding condition the conventional under voltage/over voltage/under frequency/over frequency methods fail to detect. The theoretical method to obtain wavelet energies is evolved and verified by the experimental result.

Design of almost symmetric orthogonal wavelet filter bank via direct optimization.

PubMed

Murugesan, Selvaraaju; Tay, David B H

2012-05-01

It is a well-known fact that (compact-support) dyadic wavelets [based on the two channel filter banks (FBs)] cannot be simultaneously orthogonal and symmetric. Although orthogonal wavelets have the energy preservation property, biorthogonal wavelets are preferred in image processing applications because of their symmetric property. In this paper, a novel method is presented for the design of almost symmetric orthogonal wavelet FB. Orthogonality is structurally imposed by using the unnormalized lattice structure, and this leads to an objective function, which is relatively simple to optimize. The designed filters have good frequency response, flat group delay, almost symmetric filter coefficients, and symmetric wavelet function.

Wavelets and molecular structure

NASA Astrophysics Data System (ADS)

Carson, Mike

1996-08-01

The wavelet method offers possibilities for display, editing, and topological comparison of proteins at a user-specified level of detail. Wavelets are a mathematical tool that first found application in signal processing. The multiresolution analysis of a signal via wavelets provides a hierarchical series of `best' lower-resolution approximations. B-spline ribbons model the protein fold, with one control point per residue. Wavelet analysis sets limits on the information required to define the winding of the backbone through space, suggesting a recognizable fold is generated from a number of points equal to 1/4 or less the number of residues. Wavelets applied to surfaces and volumes show promise in structure-based drug design.

Polar Wavelet Transform and the Associated Uncertainty Principles

NASA Astrophysics Data System (ADS)

Shah, Firdous A.; Tantary, Azhar Y.

2018-06-01

The polar wavelet transform- a generalized form of the classical wavelet transform has been extensively used in science and engineering for finding directional representations of signals in higher dimensions. The aim of this paper is to establish new uncertainty principles associated with the polar wavelet transforms in L2(R2). Firstly, we study some basic properties of the polar wavelet transform and then derive the associated generalized version of Heisenberg-Pauli-Weyl inequality. Finally, following the idea of Beckner (Proc. Amer. Math. Soc. 123, 1897-1905 1995), we drive the logarithmic version of uncertainty principle for the polar wavelet transforms in L2(R2).

A scalable architecture for extracting, aligning, linking, and visualizing multi-Int data

NASA Astrophysics Data System (ADS)

Knoblock, Craig A.; Szekely, Pedro

2015-05-01

An analyst today has a tremendous amount of data available, but each of the various data sources typically exists in their own silos, so an analyst has limited ability to see an integrated view of the data and has little or no access to contextual information that could help in understanding the data. We have developed the Domain-Insight Graph (DIG) system, an innovative architecture for extracting, aligning, linking, and visualizing massive amounts of domain-specific content from unstructured sources. Under the DARPA Memex program we have already successfully applied this architecture to multiple application domains, including the enormous international problem of human trafficking, where we extracted, aligned and linked data from 50 million online Web pages. DIG builds on our Karma data integration toolkit, which makes it easy to rapidly integrate structured data from a variety of sources, including databases, spreadsheets, XML, JSON, and Web services. The ability to integrate Web services allows Karma to pull in live data from the various social media sites, such as Twitter, Instagram, and OpenStreetMaps. DIG then indexes the integrated data and provides an easy to use interface for query, visualization, and analysis.

Wavelet-based 3-D inversion for frequency-domain airborne EM data

NASA Astrophysics Data System (ADS)

Liu, Yunhe; Farquharson, Colin G.; Yin, Changchun; Baranwal, Vikas C.

2018-04-01

In this paper, we propose a new wavelet-based 3-D inversion method for frequency-domain airborne electromagnetic (FDAEM) data. Instead of inverting the model in the space domain using a smoothing constraint, this new method recovers the model in the wavelet domain based on a sparsity constraint. In the wavelet domain, the model is represented by two types of coefficients, which contain both large- and fine-scale informations of the model, meaning the wavelet-domain inversion has inherent multiresolution. In order to accomplish a sparsity constraint, we minimize an L1-norm measure in the wavelet domain that mostly gives a sparse solution. The final inversion system is solved by an iteratively reweighted least-squares method. We investigate different orders of Daubechies wavelets to accomplish our inversion algorithm, and test them on synthetic frequency-domain AEM data set. The results show that higher order wavelets having larger vanishing moments and regularity can deliver a more stable inversion process and give better local resolution, while the lower order wavelets are simpler and less smooth, and thus capable of recovering sharp discontinuities if the model is simple. At last, we test this new inversion algorithm on a frequency-domain helicopter EM (HEM) field data set acquired in Byneset, Norway. Wavelet-based 3-D inversion of HEM data is compared to L2-norm-based 3-D inversion's result to further investigate the features of the new method.

A new network representation of the metabolism to detect chemical transformation modules.

PubMed

Sorokina, Maria; Medigue, Claudine; Vallenet, David

2015-11-14

Metabolism is generally modeled by directed networks where nodes represent reactions and/or metabolites. In order to explore metabolic pathway conservation and divergence among organisms, previous studies were based on graph alignment to find similar pathways. Few years ago, the concept of chemical transformation modules, also called reaction modules, was introduced and correspond to sequences of chemical transformations which are conserved in metabolism. We propose here a novel graph representation of the metabolic network where reactions sharing a same chemical transformation type are grouped in Reaction Molecular Signatures (RMS). RMS were automatically computed for all reactions and encode changes in atoms and bonds. A reaction network containing all available metabolic knowledge was then reduced by an aggregation of reaction nodes and edges to obtain a RMS network. Paths in this network were explored and a substantial number of conserved chemical transformation modules was detected. Furthermore, this graph-based formalism allows us to define several path scores reflecting different biological conservation meanings. These scores are significantly higher for paths corresponding to known metabolic pathways and were used conjointly to build association rules that should predict metabolic pathway types like biosynthesis or degradation. This representation of metabolism in a RMS network offers new insights to capture relevant metabolic contexts. Furthermore, along with genomic context methods, it should improve the detection of gene clusters corresponding to new metabolic pathways.

On the wavelet optimized finite difference method

NASA Technical Reports Server (NTRS)

Jameson, Leland

1994-01-01

When one considers the effect in the physical space, Daubechies-based wavelet methods are equivalent to finite difference methods with grid refinement in regions of the domain where small scale structure exists. Adding a wavelet basis function at a given scale and location where one has a correspondingly large wavelet coefficient is, essentially, equivalent to adding a grid point, or two, at the same location and at a grid density which corresponds to the wavelet scale. This paper introduces a wavelet optimized finite difference method which is equivalent to a wavelet method in its multiresolution approach but which does not suffer from difficulties with nonlinear terms and boundary conditions, since all calculations are done in the physical space. With this method one can obtain an arbitrarily good approximation to a conservative difference method for solving nonlinear conservation laws.

Analysis of the tennis racket vibrations during forehand drives: Selection of the mother wavelet.

PubMed

Blache, Y; Hautier, C; Lefebvre, F; Djordjevic, A; Creveaux, T; Rogowski, I

2017-08-16

The time-frequency analysis of the tennis racket and hand vibrations is of great interest for discomfort and pathology prevention. This study aimed to (i) to assess the stationarity of the vibratory signal of the racket and hand and (ii) to identify the best mother wavelet to perform future time-frequency analysis, (iii) to determine if the stroke spin, racket characteristics and impact zone can influence the selection of the best mother wavelet. A total of 2364 topspin and flat forehand drives were performed by fourteen male competitive tennis players with six different rackets. One tri-axial and one mono-axial accelerometer were taped on the racket throat and dominant hand respectively. The signal stationarity was tested through the wavelet spectrum test. Eighty-nine mother wavelet were tested to select the best mother wavelet based on continuous and discrete transforms. On average only 25±17%, 2±5%, 5±7% and 27±27% of the signal tested respected the hypothesis of stationarity for the three axes of the racket and the hand respectively. Regarding the two methods for the detection of the best mother wavelet, the Daubechy 45 wavelet presented the highest average ranking. No effect of the stroke spin, racket characteristics and impact zone was observed for the selection of the best mother wavelet. It was concluded that alternative approach to Fast Fourier Transform should be used to interpret tennis vibration signals. In the case where wavelet transform is chosen, the Daubechy 45 mother wavelet appeared to be the most suitable. Copyright © 2017 Elsevier Ltd. All rights reserved.

INDUCED EEG GAMMA OSCILLATION ALIGNMENT IMPROVES DIFFERENTIATION BETWEEN AUTISM AND ADHD GROUP RESPONSES IN A FACIAL CATEGORIZATION TASK

PubMed Central

Gross, Eric; El-Baz, Ayman S.; Sokhadze, Guela E.; Sears, Lonnie; Casanova, Manuel F.; Sokhadze, Estate M.

2012-01-01

Introduction Children diagnosed with an autism spectrum disorder (ASD) often lack the ability to recognize and properly respond to emotional stimuli. Emotional deficits also characterize children with attention deficit/hyperactivity disorder (ADHD), in addition to exhibiting limited attention span. These abnormalities may effect a difference in the induced EEG gamma wave burst (35–45 Hz) peaked approximately 300–400 milliseconds following an emotional stimulus. Because induced gamma oscillations are not fixed at a definite point in time post-stimulus, analysis of averaged EEG data with traditional methods may result in an attenuated gamma burst power. Methods We used a data alignment technique to improve the averaged data, making it a better representation of the individual induced EEG gamma oscillations. A study was designed to test the response of a subject to emotional stimuli, presented in the form of emotional facial expression images. In a four part experiment, the subjects were instructed to identify gender in the first two blocks of the test, followed by differentiating between basic emotions in the final two blocks (i.e. anger vs. disgust). EEG data was collected from ASD (n=10), ADHD (n=9), and control (n=11) subjects via a 128 channel EGI system, and processed through a continuous wavelet transform and bandpass filter to isolate the gamma frequencies. A custom MATLAB code was used to align the data from individual trials between 200–600 ms post-stimulus, EEG site, and condition by maximizing the Pearson product-moment correlation coefficient between trials. The gamma power for the 400 ms window of maximum induced gamma burst was then calculated and compared between subject groups. Results and Conclusion Condition (anger/disgust recognition, gender recognition) × Alignment × Group (ADHD, ASD, Controls) interaction was significant at most of parietal topographies (e.g., P3–P4, P7–P8). These interactions were better manifested in the aligned data set. Our results show that alignment of the induced gamma oscillations improves sensitivity of this measure in differentiation of EEG responses to emotional facial stimuli in ADHD and ASD. PMID:22754277

INDUCED EEG GAMMA OSCILLATION ALIGNMENT IMPROVES DIFFERENTIATION BETWEEN AUTISM AND ADHD GROUP RESPONSES IN A FACIAL CATEGORIZATION TASK.

PubMed

Gross, Eric; El-Baz, Ayman S; Sokhadze, Guela E; Sears, Lonnie; Casanova, Manuel F; Sokhadze, Estate M

2012-01-01

INTRODUCTION: Children diagnosed with an autism spectrum disorder (ASD) often lack the ability to recognize and properly respond to emotional stimuli. Emotional deficits also characterize children with attention deficit/hyperactivity disorder (ADHD), in addition to exhibiting limited attention span. These abnormalities may effect a difference in the induced EEG gamma wave burst (35-45 Hz) peaked approximately 300-400 milliseconds following an emotional stimulus. Because induced gamma oscillations are not fixed at a definite point in time post-stimulus, analysis of averaged EEG data with traditional methods may result in an attenuated gamma burst power. METHODS: We used a data alignment technique to improve the averaged data, making it a better representation of the individual induced EEG gamma oscillations. A study was designed to test the response of a subject to emotional stimuli, presented in the form of emotional facial expression images. In a four part experiment, the subjects were instructed to identify gender in the first two blocks of the test, followed by differentiating between basic emotions in the final two blocks (i.e. anger vs. disgust). EEG data was collected from ASD (n=10), ADHD (n=9), and control (n=11) subjects via a 128 channel EGI system, and processed through a continuous wavelet transform and bandpass filter to isolate the gamma frequencies. A custom MATLAB code was used to align the data from individual trials between 200-600 ms post-stimulus, EEG site, and condition by maximizing the Pearson product-moment correlation coefficient between trials. The gamma power for the 400 ms window of maximum induced gamma burst was then calculated and compared between subject groups. RESULTS AND CONCLUSION: Condition (anger/disgust recognition, gender recognition) × Alignment × Group (ADHD, ASD, Controls) interaction was significant at most of parietal topographies (e.g., P3-P4, P7-P8). These interactions were better manifested in the aligned data set. Our results show that alignment of the induced gamma oscillations improves sensitivity of this measure in differentiation of EEG responses to emotional facial stimuli in ADHD and ASD.

Wavelets, non-linearity and turbulence in fusion plasmas

NASA Astrophysics Data System (ADS)

van Milligen, B. Ph.

Introduction Linear spectral analysis tools Wavelet analysis Wavelet spectra and coherence Joint wavelet phase-frequency spectra Non-linear spectral analysis tools Wavelet bispectra and bicoherence Interpretation of the bicoherence Analysis of computer-generated data Coupled van der Pol oscillators A large eddy simulation model for two-fluid plasma turbulence A long wavelength plasma drift wave model Analysis of plasma edge turbulence from Langmuir probe data Radial coherence observed on the TJ-IU torsatron Bicoherence profile at the L/H transition on CCT Conclusions

Bayesian reconstruction of gravitational wave bursts using chirplets

NASA Astrophysics Data System (ADS)

Millhouse, Margaret; Cornish, Neil; Littenberg, Tyson

2017-01-01

The BayesWave algorithm has been shown to accurately reconstruct unmodeled short duration gravitational wave bursts and to distinguish between astrophysical signals and transient noise events. BayesWave does this by using a variable number of sine-Gaussian (Morlet) wavelets to reconstruct data in multiple interferometers. While the Morlet wavelets can be summed together to produce any possible waveform, there could be other wavelet functions that improve the performance. Because we expect most astrophysical gravitational wave signals to evolve in frequency, modified Morlet wavelets with linear frequency evolution - called chirplets - may better reconstruct signals with fewer wavelets. We compare the performance of BayesWave using Morlet wavelets and chirplets on a variety of simulated signals.

Research on artificial neural network intrusion detection photochemistry based on the improved wavelet analysis and transformation

NASA Astrophysics Data System (ADS)

Li, Hong; Ding, Xue

2017-03-01

This paper combines wavelet analysis and wavelet transform theory with artificial neural network, through the pretreatment on point feature attributes before in intrusion detection, to make them suitable for improvement of wavelet neural network. The whole intrusion classification model gets the better adaptability, self-learning ability, greatly enhances the wavelet neural network for solving the problem of field detection invasion, reduces storage space, contributes to improve the performance of the constructed neural network, and reduces the training time. Finally the results of the KDDCup99 data set simulation experiment shows that, this method reduces the complexity of constructing wavelet neural network, but also ensures the accuracy of the intrusion classification.

Using wavelet denoising and mathematical morphology in the segmentation technique applied to blood cells images.

PubMed

Boix, Macarena; Cantó, Begoña

2013-04-01

Accurate image segmentation is used in medical diagnosis since this technique is a noninvasive pre-processing step for biomedical treatment. In this work we present an efficient segmentation method for medical image analysis. In particular, with this method blood cells can be segmented. For that, we combine the wavelet transform with morphological operations. Moreover, the wavelet thresholding technique is used to eliminate the noise and prepare the image for suitable segmentation. In wavelet denoising we determine the best wavelet that shows a segmentation with the largest area in the cell. We study different wavelet families and we conclude that the wavelet db1 is the best and it can serve for posterior works on blood pathologies. The proposed method generates goods results when it is applied on several images. Finally, the proposed algorithm made in MatLab environment is verified for a selected blood cells.

Method and system for progressive mesh storage and reconstruction using wavelet-encoded height fields

NASA Technical Reports Server (NTRS)

Baxes, Gregory A. (Inventor); Linger, Timothy C. (Inventor)

2011-01-01

Systems and methods are provided for progressive mesh storage and reconstruction using wavelet-encoded height fields. A method for progressive mesh storage includes reading raster height field data, and processing the raster height field data with a discrete wavelet transform to generate wavelet-encoded height fields. In another embodiment, a method for progressive mesh storage includes reading texture map data, and processing the texture map data with a discrete wavelet transform to generate wavelet-encoded texture map fields. A method for reconstructing a progressive mesh from wavelet-encoded height field data includes determining terrain blocks, and a level of detail required for each terrain block, based upon a viewpoint. Triangle strip constructs are generated from vertices of the terrain blocks, and an image is rendered utilizing the triangle strip constructs. Software products that implement these methods are provided.

Method and system for progressive mesh storage and reconstruction using wavelet-encoded height fields

NASA Technical Reports Server (NTRS)

Baxes, Gregory A. (Inventor)

2010-01-01

Systems and methods are provided for progressive mesh storage and reconstruction using wavelet-encoded height fields. A method for progressive mesh storage includes reading raster height field data, and processing the raster height field data with a discrete wavelet transform to generate wavelet-encoded height fields. In another embodiment, a method for progressive mesh storage includes reading texture map data, and processing the texture map data with a discrete wavelet transform to generate wavelet-encoded texture map fields. A method for reconstructing a progressive mesh from wavelet-encoded height field data includes determining terrain blocks, and a level of detail required for each terrain block, based upon a viewpoint. Triangle strip constructs are generated from vertices of the terrain blocks, and an image is rendered utilizing the triangle strip constructs. Software products that implement these methods are provided.

The Wavelet Element Method. Part 2; Realization and Additional Features in 2D and 3D

NASA Technical Reports Server (NTRS)

Canuto, Claudio; Tabacco, Anita; Urban, Karsten

1998-01-01

The Wavelet Element Method (WEM) provides a construction of multiresolution systems and biorthogonal wavelets on fairly general domains. These are split into subdomains that are mapped to a single reference hypercube. Tensor products of scaling functions and wavelets defined on the unit interval are used on the reference domain. By introducing appropriate matching conditions across the interelement boundaries, a globally continuous biorthogonal wavelet basis on the general domain is obtained. This construction does not uniquely define the basis functions but rather leaves some freedom for fulfilling additional features. In this paper we detail the general construction principle of the WEM to the 1D, 2D and 3D cases. We address additional features such as symmetry, vanishing moments and minimal support of the wavelet functions in each particular dimension. The construction is illustrated by using biorthogonal spline wavelets on the interval.

Wavelet analysis techniques applied to removing varying spectroscopic background in calibration model for pear sugar content

NASA Astrophysics Data System (ADS)

Liu, Yande; Ying, Yibin; Lu, Huishan; Fu, Xiaping

2005-11-01

A new method is proposed to eliminate the varying background and noise simultaneously for multivariate calibration of Fourier transform near infrared (FT-NIR) spectral signals. An ideal spectrum signal prototype was constructed based on the FT-NIR spectrum of fruit sugar content measurement. The performances of wavelet based threshold de-noising approaches via different combinations of wavelet base functions were compared. Three families of wavelet base function (Daubechies, Symlets and Coiflets) were applied to estimate the performance of those wavelet bases and threshold selection rules by a series of experiments. The experimental results show that the best de-noising performance is reached via the combinations of Daubechies 4 or Symlet 4 wavelet base function. Based on the optimization parameter, wavelet regression models for sugar content of pear were also developed and result in a smaller prediction error than a traditional Partial Least Squares Regression (PLSR) mode.

Speckle noise reduction in quantitative optical metrology techniques by application of the discrete wavelet transformation

NASA Astrophysics Data System (ADS)

Furlong, Cosme; Pryputniewicz, Ryszard J.

2002-06-01

Effective suppression of speckle noise content in interferometric data images can help in improving accuracy and resolution of the results obtained with interferometric optical metrology techniques. In this paper, novel speckle noise reduction algorithms based on the discrete wavelet transformation are presented. The algorithms proceed by: (a) estimating the noise level contained in the interferograms of interest, (b) selecting wavelet families, (c) applying the wavelet transformation using the selected families, (d) wavelet thresholding, and (e) applying the inverse wavelet transformation, producing denoised interferograms. The algorithms are applied to the different stages of the processing procedures utilized for generation of quantitative speckle correlation interferometry data of fiber-optic based opto-electronic holography (FOBOEH) techniques, allowing identification of optimal processing conditions. It is shown that wavelet algorithms are effective for speckle noise reduction while preserving image features otherwise faded with other algorithms.

Two-dimensional wavelet transform for reliability-guided phase unwrapping in optical fringe pattern analysis.

PubMed

Li, Sikun; Wang, Xiangzhao; Su, Xianyu; Tang, Feng

2012-04-20

This paper theoretically discusses modulus of two-dimensional (2D) wavelet transform (WT) coefficients, calculated by using two frequently used 2D daughter wavelet definitions, in an optical fringe pattern analysis. The discussion shows that neither is good enough to represent the reliability of the phase data. The differences between the two frequently used 2D daughter wavelet definitions in the performance of 2D WT also are discussed. We propose a new 2D daughter wavelet definition for reliability-guided phase unwrapping of optical fringe pattern. The modulus of the advanced 2D WT coefficients, obtained by using a daughter wavelet under this new daughter wavelet definition, includes not only modulation information but also local frequency information of the deformed fringe pattern. Therefore, it can be treated as a good parameter that represents the reliability of the retrieved phase data. Computer simulation and experimentation show the validity of the proposed method.

Discrete wavelet approach to multifractality

NASA Astrophysics Data System (ADS)

Isaacson, Susana I.; Gabbanelli, Susana C.; Busch, Jorge R.

2000-12-01

The use of wavelet techniques for the multifractal analysis generalizes the box counting approach, and in addition provides information on eventual deviations of multifractal behavior. By the introduction of a wavelet partition function Wq and its corresponding free energy (beta) (q), the discrepancies between (beta) (q) and the multifractal free energy r(q) are shown to be indicative of these deviations. We study with Daubechies wavelets (D4) some 1D examples previously treated with Haar wavelets, and we apply the same ideas to some 2D Monte Carlo configurations, that simulate a solution under the action of an attractive potential. In this last case, we study the influence in the multifractal spectra and partition functions of four physical parameters: the intensity of the pairwise potential, the temperature, the range of the model potential, and the concentration of the solution. The wavelet partition function Wq carries more information about the cluster statistics than the multifractal partition function Zq, and the location of its peaks contributes to the determination of characteristic sales of the measure. In our experiences, the information provided by Daubechies wavelet sis slightly more accurate than the one obtained by Haar wavelets.

A Comparative Analysis for Selection of Appropriate Mother Wavelet for Detection of Stationary Disturbances

NASA Astrophysics Data System (ADS)

Kamble, Saurabh Prakash; Thawkar, Shashank; Gaikwad, Vinayak G.; Kothari, D. P.

2017-12-01

Detection of disturbances is the first step of mitigation. Power electronics plays a crucial role in modern power system which makes system operation efficient but it also bring stationary disturbances in the power system and added impurities to the supply. It happens because of the non-linear loads used in modern day power system which inject disturbances like harmonic disturbances, flickers, sag etc. in power grid. These impurities can damage equipments so it is necessary to mitigate these impurities present in the supply very quickly. So, digital signal processing techniques are incorporated for detection purpose. Signal processing techniques like fast Fourier transform, short-time Fourier transform, Wavelet transform etc. are widely used for the detection of disturbances. Among all, wavelet transform is widely used because of its better detection capabilities. But, which mother wavelet has to use for detection is still a mystery. Depending upon the periodicity, the disturbances are classified as stationary and non-stationary disturbances. This paper presents the importance of selection of mother wavelet for analyzing stationary disturbances using discrete wavelet transform. Signals with stationary disturbances of various frequencies are generated using MATLAB. The analysis of these signals is done using various mother wavelets like Daubechies and bi-orthogonal wavelets and the measured root mean square value of stationary disturbance is obtained. The measured value obtained by discrete wavelet transform is compared with the exact RMS value of the frequency component and the percentage differences are presented which helps to select optimum mother wavelet.

Wavelet extractor: A Bayesian well-tie and wavelet extraction program

NASA Astrophysics Data System (ADS)

Gunning, James; Glinsky, Michael E.

2006-06-01

We introduce a new open-source toolkit for the well-tie or wavelet extraction problem of estimating seismic wavelets from seismic data, time-to-depth information, and well-log suites. The wavelet extraction model is formulated as a Bayesian inverse problem, and the software will simultaneously estimate wavelet coefficients, other parameters associated with uncertainty in the time-to-depth mapping, positioning errors in the seismic imaging, and useful amplitude-variation-with-offset (AVO) related parameters in multi-stack extractions. It is capable of multi-well, multi-stack extractions, and uses continuous seismic data-cube interpolation to cope with the problem of arbitrary well paths. Velocity constraints in the form of checkshot data, interpreted markers, and sonic logs are integrated in a natural way. The Bayesian formulation allows computation of full posterior uncertainties of the model parameters, and the important problem of the uncertain wavelet span is addressed uses a multi-model posterior developed from Bayesian model selection theory. The wavelet extraction tool is distributed as part of the Delivery seismic inversion toolkit. A simple log and seismic viewing tool is included in the distribution. The code is written in Java, and thus platform independent, but the Seismic Unix (SU) data model makes the inversion particularly suited to Unix/Linux environments. It is a natural companion piece of software to Delivery, having the capacity to produce maximum likelihood wavelet and noise estimates, but will also be of significant utility to practitioners wanting to produce wavelet estimates for other inversion codes or purposes. The generation of full parameter uncertainties is a crucial function for workers wishing to investigate questions of wavelet stability before proceeding to more advanced inversion studies.

A novel neural-wavelet approach for process diagnostics and complex system modeling

NASA Astrophysics Data System (ADS)

Gao, Rong

Neural networks have been effective in several engineering applications because of their learning abilities and robustness. However certain shortcomings, such as slow convergence and local minima, are always associated with neural networks, especially neural networks applied to highly nonlinear and non-stationary problems. These problems can be effectively alleviated by integrating a new powerful tool, wavelets, into conventional neural networks. The multi-resolution analysis and feature localization capabilities of the wavelet transform offer neural networks new possibilities for learning. A neural wavelet network approach developed in this thesis enjoys fast convergence rate with little possibility to be caught at a local minimum. It combines the localization properties of wavelets with the learning abilities of neural networks. Two different testbeds are used for testing the efficiency of the new approach. The first is magnetic flowmeter-based process diagnostics: here we extend previous work, which has demonstrated that wavelet groups contain process information, to more general process diagnostics. A loop at Applied Intelligent Systems Lab (AISL) is used for collecting and analyzing data through the neural-wavelet approach. The research is important for thermal-hydraulic processes in nuclear and other engineering fields. The neural-wavelet approach developed is also tested with data from the electric power grid. More specifically, the neural-wavelet approach is used for performing short-term and mid-term prediction of power load demand. In addition, the feasibility of determining the type of load using the proposed neural wavelet approach is also examined. The notion of cross scale product has been developed as an expedient yet reliable discriminator of loads. Theoretical issues involved in the integration of wavelets and neural networks are discussed and future work outlined.

Computing sparse derivatives and consecutive zeros problem

NASA Astrophysics Data System (ADS)

Chandra, B. V. Ravi; Hossain, Shahadat

2013-02-01

We describe a substitution based sparse Jacobian matrix determination method using algorithmic differentiation. Utilizing the a priori known sparsity pattern, a compression scheme is determined using graph coloring. The "compressed pattern" of the Jacobian matrix is then reordered into a form suitable for computation by substitution. We show that the column reordering of the compressed pattern matrix (so as to align the zero entries into consecutive locations in each row) can be viewed as a variant of traveling salesman problem. Preliminary computational results show that on the test problems the performance of nearest-neighbor type heuristic algorithms is highly encouraging.

Viterbi sparse spike detection and a compositional origin to ultralow-velocity zones

NASA Astrophysics Data System (ADS)

Brown, Samuel Paul

Accurate interpretation of seismic travel times and amplitudes in both the exploration and global scales is complicated by the band-limited nature of seismic data. We present a stochastic method, Viterbi sparse spike detection (VSSD), to reduce a seismic waveform into a most probable constituent spike train. Model waveforms are constructed from a set of candidate spike trains convolved with a source wavelet estimate. For each model waveform, a profile hidden Markov model (HMM) is constructed to represent the waveform as a stochastic generative model with a linear topology corresponding to a sequence of samples. The Viterbi algorithm is employed to simultaneously find the optimal nonlinear alignment between a model waveform and the seismic data, and to assign a score to each candidate spike train. The most probable travel times and amplitudes are inferred from the alignments of the highest scoring models. Our analyses show that the method can resolve closely spaced arrivals below traditional resolution limits and that travel time estimates are robust in the presence of random noise and source wavelet errors. We applied the VSSD method to constrain the elastic properties of a ultralow- velocity zone (ULVZ) at the core-mantle boundary beneath the Coral Sea. We analyzed vertical component short period ScP waveforms for 16 earthquakes occurring in the Tonga-Fiji trench recorded at the Alice Springs Array (ASAR) in central Australia. These waveforms show strong pre and postcursory seismic arrivals consistent with ULVZ layering. We used the VSSD method to measure differential travel-times and amplitudes of the post-cursor arrival ScSP and the precursor arrival SPcP relative to ScP. We compare our measurements to a database of approximately 340,000 synthetic seismograms finding that these data are best fit by a ULVZ model with an S-wave velocity reduction of 24%, a P-wave velocity reduction of 23%, a thickness of 8.5 km, and a density increase of 6%. We simultaneously constrain both P- and S-wave velocity reductions as a 1:1 ratio inside this ULVZ. This 1:1 ratio is not consistent with a partial melt origin to ULVZs. Rather, we demonstrate that a compositional origin is more likely.

A user's guide to the ssWavelets package

Treesearch

J.H. ​Gove

2017-01-01

ssWavelets is an R package that is meant to be used in conjunction with the sampSurf package (Gove, 2012) to perform wavelet decomposition on the results of a sampling surface simulation. In general, the wavelet filter decomposes the sampSurf simulation results by scale (distance), with each scale corresponding to a different level of the...

Noise adaptive wavelet thresholding for speckle noise removal in optical coherence tomography.

PubMed

Zaki, Farzana; Wang, Yahui; Su, Hao; Yuan, Xin; Liu, Xuan

2017-05-01

Optical coherence tomography (OCT) is based on coherence detection of interferometric signals and hence inevitably suffers from speckle noise. To remove speckle noise in OCT images, wavelet domain thresholding has demonstrated significant advantages in suppressing noise magnitude while preserving image sharpness. However, speckle noise in OCT images has different characteristics in different spatial scales, which has not been considered in previous applications of wavelet domain thresholding. In this study, we demonstrate a noise adaptive wavelet thresholding (NAWT) algorithm that exploits the difference of noise characteristics in different wavelet sub-bands. The algorithm is simple, fast, effective and is closely related to the physical origin of speckle noise in OCT image. Our results demonstrate that NAWT outperforms conventional wavelet thresholding.

A novel method of identifying motor primitives using wavelet decomposition*

PubMed Central

Popov, Anton; Olesh, Erienne V.; Yakovenko, Sergiy; Gritsenko, Valeriya

2018-01-01

This study reports a new technique for extracting muscle synergies using continuous wavelet transform. The method allows to quantify coincident activation of muscle groups caused by the physiological processes of fixed duration, thus enabling the extraction of wavelet modules of arbitrary groups of muscles. Hierarchical clustering and identification of the repeating wavelet modules across subjects and across movements, was used to identify consistent muscle synergies. Results indicate that the most frequently repeated wavelet modules comprised combinations of two muscles that are not traditional agonists and span different joints. We have also found that these wavelet modules were flexibly combined across different movement directions in a pattern resembling directional tuning. This method is extendable to multiple frequency domains and signal modalities.

EnvironmentalWaveletTool: Continuous and discrete wavelet analysis and filtering for environmental time series

NASA Astrophysics Data System (ADS)

Galiana-Merino, J. J.; Pla, C.; Fernandez-Cortes, A.; Cuezva, S.; Ortiz, J.; Benavente, D.

2014-10-01

A MATLAB-based computer code has been developed for the simultaneous wavelet analysis and filtering of several environmental time series, particularly focused on the analyses of cave monitoring data. The continuous wavelet transform, the discrete wavelet transform and the discrete wavelet packet transform have been implemented to provide a fast and precise time-period examination of the time series at different period bands. Moreover, statistic methods to examine the relation between two signals have been included. Finally, the entropy of curves and splines based methods have also been developed for segmenting and modeling the analyzed time series. All these methods together provide a user-friendly and fast program for the environmental signal analysis, with useful, practical and understandable results.

Spherical 3D isotropic wavelets

NASA Astrophysics Data System (ADS)

Lanusse, F.; Rassat, A.; Starck, J.-L.

2012-04-01

Context. Future cosmological surveys will provide 3D large scale structure maps with large sky coverage, for which a 3D spherical Fourier-Bessel (SFB) analysis in spherical coordinates is natural. Wavelets are particularly well-suited to the analysis and denoising of cosmological data, but a spherical 3D isotropic wavelet transform does not currently exist to analyse spherical 3D data. Aims: The aim of this paper is to present a new formalism for a spherical 3D isotropic wavelet, i.e. one based on the SFB decomposition of a 3D field and accompany the formalism with a public code to perform wavelet transforms. Methods: We describe a new 3D isotropic spherical wavelet decomposition based on the undecimated wavelet transform (UWT) described in Starck et al. (2006). We also present a new fast discrete spherical Fourier-Bessel transform (DSFBT) based on both a discrete Bessel transform and the HEALPIX angular pixelisation scheme. We test the 3D wavelet transform and as a toy-application, apply a denoising algorithm in wavelet space to the Virgo large box cosmological simulations and find we can successfully remove noise without much loss to the large scale structure. Results: We have described a new spherical 3D isotropic wavelet transform, ideally suited to analyse and denoise future 3D spherical cosmological surveys, which uses a novel DSFBT. We illustrate its potential use for denoising using a toy model. All the algorithms presented in this paper are available for download as a public code called MRS3D at http://jstarck.free.fr/mrs3d.html

Remote sensing of soil organic matter of farmland with hyperspectral image

NASA Astrophysics Data System (ADS)

Gu, Xiaohe; Wang, Lei; Yang, Guijun; Zhang, Liyan

2017-10-01

Monitoring soil organic matter (SOM) of cultivated land quantitively and mastering its spatial change are helpful for fertility adjustment and sustainable development of agriculture. The study aimed to analyze the response between SOM and reflectivity of hyperspectral image with different pixel size and develop the optimal model of estimating SOM with imaging spectral technology. The wavelet transform method was used to analyze the correlation between the hyperspectral reflectivity and SOM. Then the optimal pixel size and sensitive wavelet feature scale were screened to develop the inversion model of SOM. Result showed that wavelet transform of soil hyperspectrum was help to improve the correlation between the wavelet features and SOM. In the visible wavelength range, the susceptible wavelet features of SOM mainly concentrated 460 603 nm. As the wavelength increased, the wavelet scale corresponding correlation coefficient increased maximum and then gradually decreased. In the near infrared wavelength range, the susceptible wavelet features of SOM mainly concentrated 762 882 nm. As the wavelength increased, the wavelet scale gradually decreased. The study developed multivariate model of continuous wavelet transforms by the method of stepwise linear regression (SLR). The CWT-SLR models reached higher accuracies than those of univariate models. With the resampling scale increasing, the accuracies of CWT-SLR models gradually increased, while the determination coefficients (R2) fluctuated from 0.52 to 0.59. The R2 of 5*5 scale reached highest (0.5954), while the RMSE reached lowest (2.41 g/kg). It indicated that multivariate model based on continuous wavelet transform had better ability for estimating SOM than univariate model.

Fast generation of computer-generated holograms using wavelet shrinkage.

PubMed

Shimobaba, Tomoyoshi; Ito, Tomoyoshi

2017-01-09

Computer-generated holograms (CGHs) are generated by superimposing complex amplitudes emitted from a number of object points. However, this superposition process remains very time-consuming even when using the latest computers. We propose a fast calculation algorithm for CGHs that uses a wavelet shrinkage method, eliminating small wavelet coefficient values to express approximated complex amplitudes using only a few representative wavelet coefficients.

Determination of phase from the ridge of CWT using generalized Morse wavelet

NASA Astrophysics Data System (ADS)

Kocahan, Ozlem; Tiryaki, Erhan; Coskun, Emre; Ozder, Serhat

2018-03-01

The selection of wavelet is an important step in order to determine the phase from the fringe patterns. In the present work, a new wavelet for phase retrieval from the ridge of continuous wavelet transform (CWT) is presented. The phase distributions have been extracted from the optical fringe pattern by choosing the zero order generalized morse wavelet (GMW) as a mother wavelet. The aim of the study is to reveal the ways in which the two varying parameters of GMW affect the phase calculation. To show the validity of this method, an experimental study has been conducted by using the diffraction phase microscopy (DPM) setup; consequently, the profiles of red blood cells have been retrieved. The results for the CWT ridge technique with GMW have been compared with the results for the Morlet wavelet and the Paul wavelet; the results are almost identical for Paul and zero order GMW because of their degree of freedom. Also, for further discussion, the Fourier transform and the Stockwell transform have been applied comparatively. The outcome of the comparison reveals that GMWs are highly applicable to the research in various areas, predominantly biomedicine.

On-Line Loss of Control Detection Using Wavelets

NASA Technical Reports Server (NTRS)

Brenner, Martin J. (Technical Monitor); Thompson, Peter M.; Klyde, David H.; Bachelder, Edward N.; Rosenthal, Theodore J.

2005-01-01

Wavelet transforms are used for on-line detection of aircraft loss of control. Wavelet transforms are compared with Fourier transform methods and shown to more rapidly detect changes in the vehicle dynamics. This faster response is due to a time window that decreases in length as the frequency increases. New wavelets are defined that further decrease the detection time by skewing the shape of the envelope. The wavelets are used for power spectrum and transfer function estimation. Smoothing is used to tradeoff the variance of the estimate with detection time. Wavelets are also used as front-end to the eigensystem reconstruction algorithm. Stability metrics are estimated from the frequency response and models, and it is these metrics that are used for loss of control detection. A Matlab toolbox was developed for post-processing simulation and flight data using the wavelet analysis methods. A subset of these methods was implemented in real time and named the Loss of Control Analysis Tool Set or LOCATS. A manual control experiment was conducted using a hardware-in-the-loop simulator for a large transport aircraft, in which the real time performance of LOCATS was demonstrated. The next step is to use these wavelet analysis tools for flight test support.

Quality of reconstruction of compressed off-axis digital holograms by frequency filtering and wavelets.

PubMed

Cheremkhin, Pavel A; Kurbatova, Ekaterina A

2018-01-01

Compression of digital holograms can significantly help with the storage of objects and data in 2D and 3D form, its transmission, and its reconstruction. Compression of standard images by methods based on wavelets allows high compression ratios (up to 20-50 times) with minimum losses of quality. In the case of digital holograms, application of wavelets directly does not allow high values of compression to be obtained. However, additional preprocessing and postprocessing can afford significant compression of holograms and the acceptable quality of reconstructed images. In this paper application of wavelet transforms for compression of off-axis digital holograms are considered. The combined technique based on zero- and twin-order elimination, wavelet compression of the amplitude and phase components of the obtained Fourier spectrum, and further additional compression of wavelet coefficients by thresholding and quantization is considered. Numerical experiments on reconstruction of images from the compressed holograms are performed. The comparative analysis of applicability of various wavelets and methods of additional compression of wavelet coefficients is performed. Optimum parameters of compression of holograms by the methods can be estimated. Sizes of holographic information were decreased up to 190 times.

Time Domain Propagation of Quantum and Classical Systems using a Wavelet Basis Set Method

NASA Astrophysics Data System (ADS)

Lombardini, Richard; Nowara, Ewa; Johnson, Bruce

2015-03-01

The use of an orthogonal wavelet basis set (Optimized Maximum-N Generalized Coiflets) to effectively model physical systems in the time domain, in particular the electromagnetic (EM) pulse and quantum mechanical (QM) wavefunction, is examined in this work. Although past research has demonstrated the benefits of wavelet basis sets to handle computationally expensive problems due to their multiresolution properties, the overlapping supports of neighboring wavelet basis functions poses problems when dealing with boundary conditions, especially with material interfaces in the EM case. Specifically, this talk addresses this issue using the idea of derivative matching creating fictitious grid points (T.A. Driscoll and B. Fornberg), but replaces the latter element with fictitious wavelet projections in conjunction with wavelet reconstruction filters. Two-dimensional (2D) systems are analyzed, EM pulse incident on silver cylinders and the QM electron wave packet circling the proton in a hydrogen atom system (reduced to 2D), and the new wavelet method is compared to the popular finite-difference time-domain technique.

Efficacy Evaluation of Different Wavelet Feature Extraction Methods on Brain MRI Tumor Detection

NASA Astrophysics Data System (ADS)

Nabizadeh, Nooshin; John, Nigel; Kubat, Miroslav

2014-03-01

Automated Magnetic Resonance Imaging brain tumor detection and segmentation is a challenging task. Among different available methods, feature-based methods are very dominant. While many feature extraction techniques have been employed, it is still not quite clear which of feature extraction methods should be preferred. To help improve the situation, we present the results of a study in which we evaluate the efficiency of using different wavelet transform features extraction methods in brain MRI abnormality detection. Applying T1-weighted brain image, Discrete Wavelet Transform (DWT), Discrete Wavelet Packet Transform (DWPT), Dual Tree Complex Wavelet Transform (DTCWT), and Complex Morlet Wavelet Transform (CMWT) methods are applied to construct the feature pool. Three various classifiers as Support Vector Machine, K Nearest Neighborhood, and Sparse Representation-Based Classifier are applied and compared for classifying the selected features. The results show that DTCWT and CMWT features classified with SVM, result in the highest classification accuracy, proving of capability of wavelet transform features to be informative in this application.

Fault Diagnosis for Micro-Gas Turbine Engine Sensors via Wavelet Entropy

PubMed Central

Yu, Bing; Liu, Dongdong; Zhang, Tianhong

2011-01-01

Sensor fault diagnosis is necessary to ensure the normal operation of a gas turbine system. However, the existing methods require too many resources and this need can’t be satisfied in some occasions. Since the sensor readings are directly affected by sensor state, sensor fault diagnosis can be performed by extracting features of the measured signals. This paper proposes a novel fault diagnosis method for sensors based on wavelet entropy. Based on the wavelet theory, wavelet decomposition is utilized to decompose the signal in different scales. Then the instantaneous wavelet energy entropy (IWEE) and instantaneous wavelet singular entropy (IWSE) are defined based on the previous wavelet entropy theory. Subsequently, a fault diagnosis method for gas turbine sensors is proposed based on the results of a numerically simulated example. Then, experiments on this method are carried out on a real micro gas turbine engine. In the experiment, four types of faults with different magnitudes are presented. The experimental results show that the proposed method for sensor fault diagnosis is efficient. PMID:22163734

Fault diagnosis for micro-gas turbine engine sensors via wavelet entropy.

PubMed

Yu, Bing; Liu, Dongdong; Zhang, Tianhong

2011-01-01

Sensor fault diagnosis is necessary to ensure the normal operation of a gas turbine system. However, the existing methods require too many resources and this need can't be satisfied in some occasions. Since the sensor readings are directly affected by sensor state, sensor fault diagnosis can be performed by extracting features of the measured signals. This paper proposes a novel fault diagnosis method for sensors based on wavelet entropy. Based on the wavelet theory, wavelet decomposition is utilized to decompose the signal in different scales. Then the instantaneous wavelet energy entropy (IWEE) and instantaneous wavelet singular entropy (IWSE) are defined based on the previous wavelet entropy theory. Subsequently, a fault diagnosis method for gas turbine sensors is proposed based on the results of a numerically simulated example. Then, experiments on this method are carried out on a real micro gas turbine engine. In the experiment, four types of faults with different magnitudes are presented. The experimental results show that the proposed method for sensor fault diagnosis is efficient.

Research on the fault diagnosis of bearing based on wavelet and demodulation

NASA Astrophysics Data System (ADS)

Li, Jiapeng; Yuan, Yu

2017-05-01

As a most commonly-used machine part, antifriction bearing is extensively used in mechanical equipment. Vibration signal analysis is one of the methods to monitor and diagnose the running status of antifriction bearings. Therefore, using wavelet analysis for demising is of great importance in the engineering practice. This paper firstly presented the basic theory of wavelet analysis to study the transformation, decomposition and reconstruction of wavelet. In addition, edition software LabVIEW was adopted to conduct wavelet and demodulation upon the vibration signal of antifriction bearing collected. With the combination of Hilbert envelop demodulation analysis, the fault character frequencies of the demised signal were extracted to conduct fault diagnosis analysis, which serves as a reference for the wavelet and demodulation of the vibration signal in engineering practice.

Inquiring minds: Case studies of two middle school science teachers as they include inquiry and graphing in their curricula

NASA Astrophysics Data System (ADS)

Scarano, Grace Hotchkiss

2000-10-01

Current reform documents in science and mathematics call for teachers to include inquiry and data analysis in their teaching. This interpretive quasi-ethnographic case study examined two middle school science teachers as they planned and implemented inquiry and graphing in their science curricula. The focus question for this research was: What are middle school science teachers' experiences as they include graphing and inquiry-based student research projects in their curricula? How is teaching these areas different from usual teaching? The research examined two teachers teaching their favorite unit, parts of other familiar units, graphing, and student inquiry. Four main types of data were gathered: (1) observations of teachers' instruction, (2) interviews and meetings with the teachers, (3) curricular artifacts, and (4) questionnaires and other written material. The study took place over a seven-month period. The findings revealed that these two teachers had different ideologies of schooling and that these ideologies shaped the teachers' planning and implementation of their usual content as well as graphing and inquiry. One teacher's ideology was technical, and the other's was constructive. Six themes emerged as salient features of their teaching: (1) the role of developing a vision for curricular implementation, (2) curricular decisions: internal and external authority, (3) views of knowing and learning, (4) perceptions of the nature of science, (5) attending to a personal concern in teaching, and (6) reflection. The textures of these themes varied between the two teachers, and formed a coherent yet dynamic system within which each teacher maneuvered. This study found that both teachers found it challenging to include inquiry in their curricula, even though both had attended workshops designed to help teachers use student inquiry. The constructive teacher's implementation was more in line with the notions that are central to constructivism and current non-traditional views of the nature of science than was that of the technical teacher. The teacher with a technical ideology relied on the scientific method to organize student projects and implemented inquiry as a technique to increase student-centered work. It is proposed that teachers with technical ideologies need to undergo an ideological shift toward constructive ideologies of schooling in order to teach graphing and inquiry in ways that are aligned with current reform efforts.

Partial slip effect on non-aligned stagnation point nanofluid over a stretching convective surface

NASA Astrophysics Data System (ADS)

Nadeem, S.; Rashid, Mehmood; Noreen Sher, Akbar

2015-01-01

The present study inspects the non-aligned stagnation point nano fluid over a convective surface in the presence of partial slip.Two types of base fluids namely water and kerosene are selected with Cu nanoparticles. The governing physical problem is presented and transformed into a system of coupled nonlinear differential equations using suitable similarity transformations. These equations are then solved numerically using midpoint integration scheme along with Richardson extrapolation via Maple. Impact of relevant physical parameters on the dimensionless velocity and temperature profiles are portrayed through graphs. Physical quantities such as local skin frictions co-efficient and Nusselt numbers are tabularized. It is detected from numerical computations that kerosene-based nano fluids have better heat transfer capability compared with water-based nanofluids. Moreover it is found that water-based nanofluids offer less resistance in terms of skin friction than kerosene-based fluid. In order to authenticate our present study, the calculated results are compared with the prevailing literature and a considerable agreement is perceived for the limiting case.

Scope and applications of translation invariant wavelets to image registration

NASA Technical Reports Server (NTRS)

Chettri, Samir; LeMoigne, Jacqueline; Campbell, William

1997-01-01

The first part of this article introduces the notion of translation invariance in wavelets and discusses several wavelets that have this property. The second part discusses the possible applications of such wavelets to image registration. In the case of registration of affinely transformed images, we would conclude that the notion of translation invariance is not really necessary. What is needed is affine invariance and one way to do this is via the method of moment invariants. Wavelets or, in general, pyramid processing can then be combined with the method of moment invariants to reduce the computational load.

Correlation Filtering of Modal Dynamics using the Laplace Wavelet

NASA Technical Reports Server (NTRS)

Freudinger, Lawrence C.; Lind, Rick; Brenner, Martin J.

1997-01-01

Wavelet analysis allows processing of transient response data commonly encountered in vibration health monitoring tasks such as aircraft flutter testing. The Laplace wavelet is formulated as an impulse response of a single mode system to be similar to data features commonly encountered in these health monitoring tasks. A correlation filtering approach is introduced using the Laplace wavelet to decompose a signal into impulse responses of single mode subsystems. Applications using responses from flutter testing of aeroelastic systems demonstrate modal parameters and stability estimates can be estimated by correlation filtering free decay data with a set of Laplace wavelets.

Alcoholism detection in magnetic resonance imaging by Haar wavelet transform and back propagation neural network

NASA Astrophysics Data System (ADS)

Yu, Yali; Wang, Mengxia; Lima, Dimas

2018-04-01

In order to develop a novel alcoholism detection method, we proposed a magnetic resonance imaging (MRI)-based computer vision approach. We first use contrast equalization to increase the contrast of brain slices. Then, we perform Haar wavelet transform and principal component analysis. Finally, we use back propagation neural network (BPNN) as the classification tool. Our method yields a sensitivity of 81.71±4.51%, a specificity of 81.43±4.52%, and an accuracy of 81.57±2.18%. The Haar wavelet gives better performance than db4 wavelet and sym3 wavelet.

Wavelet analysis in two-dimensional tomography

NASA Astrophysics Data System (ADS)

Burkovets, Dimitry N.

2002-02-01

The diagnostic possibilities of wavelet-analysis of coherent images of connective tissue in its pathological changes diagnostics. The effectiveness of polarization selection in obtaining wavelet-coefficients' images is also shown. The wavelet structures, characterizing the process of skin psoriasis, bone-tissue osteoporosis have been analyzed. The histological sections of physiological normal and pathologically changed samples of connective tissue of human skin and spongy bone tissue have been analyzed.

Adaptive Filtering in the Wavelet Transform Domain via Genetic Algorithms

DTIC Science & Technology

2004-08-06

wavelet transforms. Whereas the term “evolved” pertains only to the altered wavelet coefficients used during the inverse transform process. 2...words, the inverse transform produces the original signal x(t) from the wavelet and scaling coefficients. )()( ,, tdtx nk n nk k ψ...reconstruct the original signal as accurately as possible. The inverse transform reconstructs an approximation of the original signal (Burrus

Sediment Dynamics in a Vegetated Tidally Influenced Interdistributary Island: Wax Lake, Louisiana

DTIC Science & Technology

2017-07-01

60 Appendix A: Time Series of Wax Lake Hydrological Measurements...north-south wind stress (right). In each plot, the global wavelet spectrum is shown to the right of the wavelet plot, and and the original time series ...for Hs. The global wavelet spectrum is shown to the right of the wavelet plot, and and the original time series is shown below

Implementing wavelet inverse-transform processor with surface acoustic wave device.

PubMed

Lu, Wenke; Zhu, Changchun; Liu, Qinghong; Zhang, Jingduan

2013-02-01

The objective of this research was to investigate the implementation schemes of the wavelet inverse-transform processor using surface acoustic wave (SAW) device, the length function of defining the electrodes, and the possibility of solving the load resistance and the internal resistance for the wavelet inverse-transform processor using SAW device. In this paper, we investigate the implementation schemes of the wavelet inverse-transform processor using SAW device. In the implementation scheme that the input interdigital transducer (IDT) and output IDT stand in a line, because the electrode-overlap envelope of the input IDT is identical with the one of the output IDT (i.e. the two transducers are identical), the product of the input IDT's frequency response and the output IDT's frequency response can be implemented, so that the wavelet inverse-transform processor can be fabricated. X-112(0)Y LiTaO(3) is used as a substrate material to fabricate the wavelet inverse-transform processor. The size of the wavelet inverse-transform processor using this implementation scheme is small, so its cost is low. First, according to the envelope function of the wavelet function, the length function of the electrodes is defined, then, the lengths of the electrodes can be calculated from the length function of the electrodes, finally, the input IDT and output IDT can be designed according to the lengths and widths for the electrodes. In this paper, we also present the load resistance and the internal resistance as the two problems of the wavelet inverse-transform processor using SAW devices. The solutions to these problems are achieved in this study. When the amplifiers are subjected to the input end and output end for the wavelet inverse-transform processor, they can eliminate the influence of the load resistance and the internal resistance on the output voltage of the wavelet inverse-transform processor using SAW device. Copyright © 2012 Elsevier B.V. All rights reserved.

Comparison between wavelet and wavelet packet transform features for classification of faults in distribution system

NASA Astrophysics Data System (ADS)

Arvind, Pratul

2012-11-01

The ability to identify and classify all ten types of faults in a distribution system is an important task for protection engineers. Unlike transmission system, distribution systems have a complex configuration and are subjected to frequent faults. In the present work, an algorithm has been developed for identifying all ten types of faults in a distribution system by collecting current samples at the substation end. The samples are subjected to wavelet packet transform and artificial neural network in order to yield better classification results. A comparison of results between wavelet transform and wavelet packet transform is also presented thereby justifying the feature extracted from wavelet packet transform yields promising results. It should also be noted that current samples are collected after simulating a 25kv distribution system in PSCAD software.

Wavelets on the Group SO(3) and the Sphere S3

NASA Astrophysics Data System (ADS)

Bernstein, Swanhild

2007-09-01

The construction of wavelets relies on translations and dilations which are perfectly given in R. On the sphere translations can be considered as rotations but it difficult to say what are dilations. For the 2-dimensional sphere there exist two different approaches to obtain wavelets which are worth to be considered. The first concept goes back to Freeden and collaborators [2] which defines wavelets by means of kernels of spherical singular integrals. The other concept developed by Antoine and Vandergheynst and coworkers [3] is a purely group theoretical approach and defines dilations as dilations in the tangent plane. Surprisingly both concepts coincides for zonal functions. We will define wavelets on the 3-dimensional sphere by means of kernels of singular integrals and demonstrate that wavelets constructed by Antoine and Vandergheynst for zonal functions meet our definition.

Simulation of groundwater level variations using wavelet combined with neural network, linear regression and support vector machine

NASA Astrophysics Data System (ADS)

Ebrahimi, Hadi; Rajaee, Taher

2017-01-01

Simulation of groundwater level (GWL) fluctuations is an important task in management of groundwater resources. In this study, the effect of wavelet analysis on the training of the artificial neural network (ANN), multi linear regression (MLR) and support vector regression (SVR) approaches was investigated, and the ANN, MLR and SVR along with the wavelet-ANN (WNN), wavelet-MLR (WLR) and wavelet-SVR (WSVR) models were compared in simulating one-month-ahead of GWL. The only variable used to develop the models was the monthly GWL data recorded over a period of 11 years from two wells in the Qom plain, Iran. The results showed that decomposing GWL time series into several sub-time series, extremely improved the training of the models. For both wells 1 and 2, the Meyer and Db5 wavelets produced better results compared to the other wavelets; which indicated wavelet types had similar behavior in similar case studies. The optimal number of delays was 6 months, which seems to be due to natural phenomena. The best WNN model, using Meyer mother wavelet with two decomposition levels, simulated one-month-ahead with RMSE values being equal to 0.069 m and 0.154 m for wells 1 and 2, respectively. The RMSE values for the WLR model were 0.058 m and 0.111 m, and for WSVR model were 0.136 m and 0.060 m for wells 1 and 2, respectively.

Indexed variation graphs for efficient and accurate resistome profiling.

PubMed

Rowe, Will P M; Winn, Martyn D

2018-05-14

Antimicrobial resistance remains a major threat to global health. Profiling the collective antimicrobial resistance genes within a metagenome (the "resistome") facilitates greater understanding of antimicrobial resistance gene diversity and dynamics. In turn, this can allow for gene surveillance, individualised treatment of bacterial infections and more sustainable use of antimicrobials. However, resistome profiling can be complicated by high similarity between reference genes, as well as the sheer volume of sequencing data and the complexity of analysis workflows. We have developed an efficient and accurate method for resistome profiling that addresses these complications and improves upon currently available tools. Our method combines a variation graph representation of gene sets with an LSH Forest indexing scheme to allow for fast classification of metagenomic sequence reads using similarity-search queries. Subsequent hierarchical local alignment of classified reads against graph traversals enables accurate reconstruction of full-length gene sequences using a scoring scheme. We provide our implementation, GROOT, and show it to be both faster and more accurate than a current reference-dependent tool for resistome profiling. GROOT runs on a laptop and can process a typical 2 gigabyte metagenome in 2 minutes using a single CPU. Our method is not restricted to resistome profiling and has the potential to improve current metagenomic workflows. GROOT is written in Go and is available at https://github.com/will-rowe/groot (MIT license). will.rowe@stfc.ac.uk. Supplementary data are available at Bioinformatics online.

Basis Selection for Wavelet Regression

NASA Technical Reports Server (NTRS)

Wheeler, Kevin R.; Lau, Sonie (Technical Monitor)

1998-01-01

A wavelet basis selection procedure is presented for wavelet regression. Both the basis and the threshold are selected using cross-validation. The method includes the capability of incorporating prior knowledge on the smoothness (or shape of the basis functions) into the basis selection procedure. The results of the method are demonstrated on sampled functions widely used in the wavelet regression literature. The results of the method are contrasted with other published methods.

A wavelet ridge extraction method employing a novel cost function in two-dimensional wavelet transform profilometry

NASA Astrophysics Data System (ADS)

Wang, Jianhua; Yang, Yanxi

2018-05-01

We present a new wavelet ridge extraction method employing a novel cost function in two-dimensional wavelet transform profilometry (2-D WTP). First of all, the maximum value point is extracted from two-dimensional wavelet transform coefficient modulus, and the local extreme value points over 90% of maximum value are also obtained, they both constitute wavelet ridge candidates. Then, the gradient of rotate factor is introduced into the Abid's cost function, and the logarithmic Logistic model is used to adjust and improve the cost function weights so as to obtain more reasonable value estimation. At last, the dynamic programming method is used to accurately find the optimal wavelet ridge, and the wrapped phase can be obtained by extracting the phase at the ridge. Its advantage is that, the fringe pattern with low signal-to-noise ratio can be demodulated accurately, and its noise immunity will be better. Meanwhile, only one fringe pattern is needed to projected to measured object, so dynamic three-dimensional (3-D) measurement in harsh environment can be realized. Computer simulation and experimental results show that, for the fringe pattern with noise pollution, the 3-D surface recovery accuracy by the proposed algorithm is increased. In addition, the demodulation phase accuracy of Morlet, Fan and Cauchy mother wavelets are compared.

Harmonic analysis of electric locomotive and traction power system based on wavelet singular entropy

NASA Astrophysics Data System (ADS)

Dun, Xiaohong

2018-05-01

With the rapid development of high-speed railway and heavy-haul transport, the locomotive and traction power system has become the main harmonic source of China's power grid. In response to this phenomenon, the system's power quality issues need timely monitoring, assessment and governance. Wavelet singular entropy is an organic combination of wavelet transform, singular value decomposition and information entropy theory, which combines the unique advantages of the three in signal processing: the time-frequency local characteristics of wavelet transform, singular value decomposition explores the basic modal characteristics of data, and information entropy quantifies the feature data. Based on the theory of singular value decomposition, the wavelet coefficient matrix after wavelet transform is decomposed into a series of singular values that can reflect the basic characteristics of the original coefficient matrix. Then the statistical properties of information entropy are used to analyze the uncertainty of the singular value set, so as to give a definite measurement of the complexity of the original signal. It can be said that wavelet entropy has a good application prospect in fault detection, classification and protection. The mat lab simulation shows that the use of wavelet singular entropy on the locomotive and traction power system harmonic analysis is effective.

Experimental study on the crack detection with optimized spatial wavelet analysis and windowing

NASA Astrophysics Data System (ADS)

Ghanbari Mardasi, Amir; Wu, Nan; Wu, Christine

2018-05-01

In this paper, a high sensitive crack detection is experimentally realized and presented on a beam under certain deflection by optimizing spatial wavelet analysis. Due to the crack existence in the beam structure, a perturbation/slop singularity is induced in the deflection profile. Spatial wavelet transformation works as a magnifier to amplify the small perturbation signal at the crack location to detect and localize the damage. The profile of a deflected aluminum cantilever beam is obtained for both intact and cracked beams by a high resolution laser profile sensor. Gabor wavelet transformation is applied on the subtraction of intact and cracked data sets. To improve detection sensitivity, scale factor in spatial wavelet transformation and the transformation repeat times are optimized. Furthermore, to detect the possible crack close to the measurement boundaries, wavelet transformation edge effect, which induces large values of wavelet coefficient around the measurement boundaries, is efficiently reduced by introducing different windowing functions. The result shows that a small crack with depth of less than 10% of the beam height can be localized with a clear perturbation. Moreover, the perturbation caused by a crack at 0.85 mm away from one end of the measurement range, which is covered by wavelet transform edge effect, emerges by applying proper window functions.

A wavelet-based statistical analysis of FMRI data: I. motivation and data distribution modeling.

PubMed

Dinov, Ivo D; Boscardin, John W; Mega, Michael S; Sowell, Elizabeth L; Toga, Arthur W

2005-01-01

We propose a new method for statistical analysis of functional magnetic resonance imaging (fMRI) data. The discrete wavelet transformation is employed as a tool for efficient and robust signal representation. We use structural magnetic resonance imaging (MRI) and fMRI to empirically estimate the distribution of the wavelet coefficients of the data both across individuals and spatial locations. An anatomical subvolume probabilistic atlas is used to tessellate the structural and functional signals into smaller regions each of which is processed separately. A frequency-adaptive wavelet shrinkage scheme is employed to obtain essentially optimal estimations of the signals in the wavelet space. The empirical distributions of the signals on all the regions are computed in a compressed wavelet space. These are modeled by heavy-tail distributions because their histograms exhibit slower tail decay than the Gaussian. We discovered that the Cauchy, Bessel K Forms, and Pareto distributions provide the most accurate asymptotic models for the distribution of the wavelet coefficients of the data. Finally, we propose a new model for statistical analysis of functional MRI data using this atlas-based wavelet space representation. In the second part of our investigation, we will apply this technique to analyze a large fMRI dataset involving repeated presentation of sensory-motor response stimuli in young, elderly, and demented subjects.

Image Retrieval using Integrated Features of Binary Wavelet Transform

NASA Astrophysics Data System (ADS)

Agarwal, Megha; Maheshwari, R. P.

2011-12-01

In this paper a new approach for image retrieval is proposed with the application of binary wavelet transform. This new approach facilitates the feature calculation with the integration of histogram and correlogram features extracted from binary wavelet subbands. Experiments are performed to evaluate and compare the performance of proposed method with the published literature. It is verified that average precision and average recall of proposed method (69.19%, 41.78%) is significantly improved compared to optimal quantized wavelet correlogram (OQWC) [6] (64.3%, 38.00%) and Gabor wavelet correlogram (GWC) [10] (64.1%, 40.6%). All the experiments are performed on Corel 1000 natural image database [20].

Wavelet and Multiresolution Analysis for Finite Element Networking Paradigms

NASA Technical Reports Server (NTRS)

Kurdila, Andrew J.; Sharpley, Robert C.

1999-01-01

This paper presents a final report on Wavelet and Multiresolution Analysis for Finite Element Networking Paradigms. The focus of this research is to derive and implement: 1) Wavelet based methodologies for the compression, transmission, decoding, and visualization of three dimensional finite element geometry and simulation data in a network environment; 2) methodologies for interactive algorithm monitoring and tracking in computational mechanics; and 3) Methodologies for interactive algorithm steering for the acceleration of large scale finite element simulations. Also included in this report are appendices describing the derivation of wavelet based Particle Image Velocity algorithms and reduced order input-output models for nonlinear systems by utilizing wavelet approximations.

Watermarking on 3D mesh based on spherical wavelet transform.

PubMed

Jin, Jian-Qiu; Dai, Min-Ya; Bao, Hu-Jun; Peng, Qun-Sheng

2004-03-01

In this paper we propose a robust watermarking algorithm for 3D mesh. The algorithm is based on spherical wavelet transform. Our basic idea is to decompose the original mesh into a series of details at different scales by using spherical wavelet transform; the watermark is then embedded into the different levels of details. The embedding process includes: global sphere parameterization, spherical uniform sampling, spherical wavelet forward transform, embedding watermark, spherical wavelet inverse transform, and at last resampling the mesh watermarked to recover the topological connectivity of the original model. Experiments showed that our algorithm can improve the capacity of the watermark and the robustness of watermarking against attacks.

Adaptive wavelet collocation methods for initial value boundary problems of nonlinear PDE's

NASA Technical Reports Server (NTRS)

Cai, Wei; Wang, Jian-Zhong

1993-01-01

We have designed a cubic spline wavelet decomposition for the Sobolev space H(sup 2)(sub 0)(I) where I is a bounded interval. Based on a special 'point-wise orthogonality' of the wavelet basis functions, a fast Discrete Wavelet Transform (DWT) is constructed. This DWT transform will map discrete samples of a function to its wavelet expansion coefficients in O(N log N) operations. Using this transform, we propose a collocation method for the initial value boundary problem of nonlinear PDE's. Then, we test the efficiency of the DWT transform and apply the collocation method to solve linear and nonlinear PDE's.

Continuous time wavelet entropy of auditory evoked potentials.

PubMed

Cek, M Emre; Ozgoren, Murat; Savaci, F Acar

2010-01-01

In this paper, the continuous time wavelet entropy (CTWE) of auditory evoked potentials (AEP) has been characterized by evaluating the relative wavelet energies (RWE) in specified EEG frequency bands. Thus, the rapid variations of CTWE due to the auditory stimulation could be detected in post-stimulus time interval. This approach removes the probability of missing the information hidden in short time intervals. The discrete time and continuous time wavelet based wavelet entropy variations were compared on non-target and target AEP data. It was observed that CTWE can also be an alternative method to analyze entropy as a function of time. 2009 Elsevier Ltd. All rights reserved.

A lung sound classification system based on the rational dilation wavelet transform.

PubMed

Ulukaya, Sezer; Serbes, Gorkem; Sen, Ipek; Kahya, Yasemin P

2016-08-01

In this work, a wavelet based classification system that aims to discriminate crackle, normal and wheeze lung sounds is presented. While the previous works related with this problem use constant low Q-factor wavelets, which have limited frequency resolution and can not cope with oscillatory signals, in the proposed system, the Rational Dilation Wavelet Transform, whose Q-factors can be tuned, is employed. Proposed system yields an accuracy of 95 % for crackle, 97 % for wheeze, 93.50 % for normal and 95.17 % for total sound signal types using energy feature subset and proposed approach is superior to conventional low Q-factor wavelet analysis.

A human auditory tuning curves matched wavelet function.

PubMed

Abolhassani, Mohammad D; Salimpour, Yousef

2008-01-01

This paper proposes a new quantitative approach to the problem of matching a wavelet function to a human auditory tuning curves. The auditory filter shapes were derived from the psychophysical measurements in normal-hearing listeners using the variant of the notched-noise method for brief signals in forward and simultaneous masking. These filters were used as templates for the designing a wavelet function that has the maximum matching to a tuning curve. The scaling function was calculated from the matched wavelet function and by using these functions, low pass and high pass filters were derived for the implementation of a filter bank. Therefore, new wavelet families were derived.

Cell edge detection in JPEG2000 wavelet domain - analysis on sigmoid function edge model.

PubMed

Punys, Vytenis; Maknickas, Ramunas

2011-01-01

Big virtual microscopy images (80K x 60K pixels and larger) are usually stored using the JPEG2000 image compression scheme. Diagnostic quantification, based on image analysis, might be faster if performed on compressed data (approx. 20 times less the original amount), representing the coefficients of the wavelet transform. The analysis of possible edge detection without reverse wavelet transform is presented in the paper. Two edge detection methods, suitable for JPEG2000 bi-orthogonal wavelets, are proposed. The methods are adjusted according calculated parameters of sigmoid edge model. The results of model analysis indicate more suitable method for given bi-orthogonal wavelet.

A simulation study for determination of refractive index dispersion of dielectric film from reflectance spectrum by using Paul wavelet

NASA Astrophysics Data System (ADS)

Tiryaki, Erhan; Coşkun, Emre; Kocahan, Özlem; Özder, Serhat

2017-02-01

In this work, the Continuous Wavelet Transform (CWT) with Paul wavelet was improved as a tool for determination of refractive index dispersion of dielectric film by using the reflectance spectrum of the film. The reflectance spectrum was generated theoretically in the range of 0.8333 - 3.3333 μm wavenumber and it was analyzed with presented method. Obtained refractive index determined from various resolution of Paul wavelet were compared with the input values, and the importance of the tunable resolution with Paul wavelet was discussed briefly. The noise immunity and uncertainty of the method was also studied.

Automated identification of RNA 3D modules with discriminative power in RNA structural alignments.

PubMed

Theis, Corinna; Höner Zu Siederdissen, Christian; Hofacker, Ivo L; Gorodkin, Jan

2013-12-01

Recent progress in predicting RNA structure is moving towards filling the 'gap' in 2D RNA structure prediction where, for example, predicted internal loops often form non-canonical base pairs. This is increasingly recognized with the steady increase of known RNA 3D modules. There is a general interest in matching structural modules known from one molecule to other molecules for which the 3D structure is not known yet. We have created a pipeline, metaRNAmodules, which completely automates extracting putative modules from the FR3D database and mapping of such modules to Rfam alignments to obtain comparative evidence. Subsequently, the modules, initially represented by a graph, are turned into models for the RMDetect program, which allows to test their discriminative power using real and randomized Rfam alignments. An initial extraction of 22 495 3D modules in all PDB files results in 977 internal loop and 17 hairpin modules with clear discriminatory power. Many of these modules describe only minor variants of each other. Indeed, mapping of the modules onto Rfam families results in 35 unique locations in 11 different families. The metaRNAmodules pipeline source for the internal loop modules is available at http://rth.dk/resources/mrm.

eHive: an artificial intelligence workflow system for genomic analysis.

PubMed

Severin, Jessica; Beal, Kathryn; Vilella, Albert J; Fitzgerald, Stephen; Schuster, Michael; Gordon, Leo; Ureta-Vidal, Abel; Flicek, Paul; Herrero, Javier

2010-05-11

The Ensembl project produces updates to its comparative genomics resources with each of its several releases per year. During each release cycle approximately two weeks are allocated to generate all the genomic alignments and the protein homology predictions. The number of calculations required for this task grows approximately quadratically with the number of species. We currently support 50 species in Ensembl and we expect the number to continue to grow in the future. We present eHive, a new fault tolerant distributed processing system initially designed to support comparative genomic analysis, based on blackboard systems, network distributed autonomous agents, dataflow graphs and block-branch diagrams. In the eHive system a MySQL database serves as the central blackboard and the autonomous agent, a Perl script, queries the system and runs jobs as required. The system allows us to define dataflow and branching rules to suit all our production pipelines. We describe the implementation of three pipelines: (1) pairwise whole genome alignments, (2) multiple whole genome alignments and (3) gene trees with protein homology inference. Finally, we show the efficiency of the system in real case scenarios. eHive allows us to produce computationally demanding results in a reliable and efficient way with minimal supervision and high throughput. Further documentation is available at: http://www.ensembl.org/info/docs/eHive/.

Highly efficient codec based on significance-linked connected-component analysis of wavelet coefficients

NASA Astrophysics Data System (ADS)

Chai, Bing-Bing; Vass, Jozsef; Zhuang, Xinhua

1997-04-01

Recent success in wavelet coding is mainly attributed to the recognition of importance of data organization. There has been several very competitive wavelet codecs developed, namely, Shapiro's Embedded Zerotree Wavelets (EZW), Servetto et. al.'s Morphological Representation of Wavelet Data (MRWD), and Said and Pearlman's Set Partitioning in Hierarchical Trees (SPIHT). In this paper, we propose a new image compression algorithm called Significant-Linked Connected Component Analysis (SLCCA) of wavelet coefficients. SLCCA exploits both within-subband clustering of significant coefficients and cross-subband dependency in significant fields. A so-called significant link between connected components is designed to reduce the positional overhead of MRWD. In addition, the significant coefficients' magnitude are encoded in bit plane order to match the probability model of the adaptive arithmetic coder. Experiments show that SLCCA outperforms both EZW and MRWD, and is tied with SPIHT. Furthermore, it is observed that SLCCA generally has the best performance on images with large portion of texture. When applied to fingerprint image compression, it outperforms FBI's wavelet scalar quantization by about 1 dB.

Characteristic Analysis of Air-gun Source Wavelet based on the Vertical Cable Data

NASA Astrophysics Data System (ADS)

Xing, L.

2016-12-01

Air guns are important sources for marine seismic exploration. Far-field wavelets of air gun arrays, as a necessary parameter for pre-stack processing and source models, plays an important role during marine seismic data processing and interpretation. When an air gun fires, it generates a series of air bubbles. Similar to onshore seismic exploration, the water forms a plastic fluid near the bubble; the farther the air gun is located from the measurement, the more steady and more accurately represented the wavelet will be. In practice, hydrophones should be placed more than 100 m from the air gun; however, traditional seismic cables cannot meet this requirement. On the other hand, vertical cables provide a viable solution to this problem. This study uses a vertical cable to receive wavelets from 38 air guns and data are collected offshore Southeast Qiong, where the water depth is over 1000 m. In this study, the wavelets measured using this technique coincide very well with the simulated wavelets and can therefore represent the real shape of the wavelets. This experiment fills a technology gap in China.

Spatially adaptive bases in wavelet-based coding of semi-regular meshes

NASA Astrophysics Data System (ADS)

Denis, Leon; Florea, Ruxandra; Munteanu, Adrian; Schelkens, Peter

2010-05-01

In this paper we present a wavelet-based coding approach for semi-regular meshes, which spatially adapts the employed wavelet basis in the wavelet transformation of the mesh. The spatially-adaptive nature of the transform requires additional information to be stored in the bit-stream in order to allow the reconstruction of the transformed mesh at the decoder side. In order to limit this overhead, the mesh is first segmented into regions of approximately equal size. For each spatial region, a predictor is selected in a rate-distortion optimal manner by using a Lagrangian rate-distortion optimization technique. When compared against the classical wavelet transform employing the butterfly subdivision filter, experiments reveal that the proposed spatially-adaptive wavelet transform significantly decreases the energy of the wavelet coefficients for all subbands. Preliminary results show also that employing the proposed transform for the lowest-resolution subband systematically yields improved compression performance at low-to-medium bit-rates. For the Venus and Rabbit test models the compression improvements add up to 1.47 dB and 0.95 dB, respectively.

Recent Advances in Registration, Integration and Fusion of Remotely Sensed Data: Redundant Representations and Frames

NASA Technical Reports Server (NTRS)

Czaja, Wojciech; Le Moigne-Stewart, Jacqueline

2014-01-01

In recent years, sophisticated mathematical techniques have been successfully applied to the field of remote sensing to produce significant advances in applications such as registration, integration and fusion of remotely sensed data. Registration, integration and fusion of multiple source imagery are the most important issues when dealing with Earth Science remote sensing data where information from multiple sensors, exhibiting various resolutions, must be integrated. Issues ranging from different sensor geometries, different spectral responses, differing illumination conditions, different seasons, and various amounts of noise need to be dealt with when designing an image registration, integration or fusion method. This tutorial will first define the problems and challenges associated with these applications and then will review some mathematical techniques that have been successfully utilized to solve them. In particular, we will cover topics on geometric multiscale representations, redundant representations and fusion frames, graph operators, diffusion wavelets, as well as spatial-spectral and operator-based data fusion. All the algorithms will be illustrated using remotely sensed data, with an emphasis on current and operational instruments.

Exploring quantum computing application to satellite data assimilation

NASA Astrophysics Data System (ADS)

Cheung, S.; Zhang, S. Q.

2015-12-01

This is an exploring work on potential application of quantum computing to a scientific data optimization problem. On classical computational platforms, the physical domain of a satellite data assimilation problem is represented by a discrete variable transform, and classical minimization algorithms are employed to find optimal solution of the analysis cost function. The computation becomes intensive and time-consuming when the problem involves large number of variables and data. The new quantum computer opens a very different approach both in conceptual programming and in hardware architecture for solving optimization problem. In order to explore if we can utilize the quantum computing machine architecture, we formulate a satellite data assimilation experimental case in the form of quadratic programming optimization problem. We find a transformation of the problem to map it into Quadratic Unconstrained Binary Optimization (QUBO) framework. Binary Wavelet Transform (BWT) will be applied to the data assimilation variables for its invertible decomposition and all calculations in BWT are performed by Boolean operations. The transformed problem will be experimented as to solve for a solution of QUBO instances defined on Chimera graphs of the quantum computer.

A Wavelet Model for Vocalic Speech Coarticulation

DTIC Science & Technology

1994-10-01

control vowel’s signal as the mother wavelet. A practical experiment is conducted to evaluate the coarticulation channel using samples 01 real speech...transformation from a control speech state (input) to an effected speech state (output). Specifically, a vowel produced in isolation is transformed into an...the wavelet transform of the effected vowel’s signal, using the control vowel’s signal as the mother wavelet. A practical experiment is conducted to

Signal processing method and system for noise removal and signal extraction

DOEpatents

Fu, Chi Yung; Petrich, Loren

2009-04-14

A signal processing method and system combining smooth level wavelet pre-processing together with artificial neural networks all in the wavelet domain for signal denoising and extraction. Upon receiving a signal corrupted with noise, an n-level decomposition of the signal is performed using a discrete wavelet transform to produce a smooth component and a rough component for each decomposition level. The n.sup.th level smooth component is then inputted into a corresponding neural network pre-trained to filter out noise in that component by pattern recognition in the wavelet domain. Additional rough components, beginning at the highest level, may also be retained and inputted into corresponding neural networks pre-trained to filter out noise in those components also by pattern recognition in the wavelet domain. In any case, an inverse discrete wavelet transform is performed on the combined output from all the neural networks to recover a clean signal back in the time domain.

A wavelet-based Gaussian method for energy dispersive X-ray fluorescence spectrum.

PubMed

Liu, Pan; Deng, Xiaoyan; Tang, Xin; Shen, Shijian

2017-05-01

This paper presents a wavelet-based Gaussian method (WGM) for the peak intensity estimation of energy dispersive X-ray fluorescence (EDXRF). The relationship between the parameters of Gaussian curve and the wavelet coefficients of Gaussian peak point is firstly established based on the Mexican hat wavelet. It is found that the Gaussian parameters can be accurately calculated by any two wavelet coefficients at the peak point which has to be known. This fact leads to a local Gaussian estimation method for spectral peaks, which estimates the Gaussian parameters based on the detail wavelet coefficients of Gaussian peak point. The proposed method is tested via simulated and measured spectra from an energy X-ray spectrometer, and compared with some existing methods. The results prove that the proposed method can directly estimate the peak intensity of EDXRF free from the background information, and also effectively distinguish overlap peaks in EDXRF spectrum.

Use of the Morlet mother wavelet in the frequency-scale domain decomposition technique for the modal identification of ambient vibration responses

NASA Astrophysics Data System (ADS)

Le, Thien-Phu

2017-10-01

The frequency-scale domain decomposition technique has recently been proposed for operational modal analysis. The technique is based on the Cauchy mother wavelet. In this paper, the approach is extended to the Morlet mother wavelet, which is very popular in signal processing due to its superior time-frequency localization. Based on the regressive form and an appropriate norm of the Morlet mother wavelet, the continuous wavelet transform of the power spectral density of ambient responses enables modes in the frequency-scale domain to be highlighted. Analytical developments first demonstrate the link between modal parameters and the local maxima of the continuous wavelet transform modulus. The link formula is then used as the foundation of the proposed modal identification method. Its practical procedure, combined with the singular value decomposition algorithm, is presented step by step. The proposition is finally verified using numerical examples and a laboratory test.

A new wavelet transform to sparsely represent cortical current densities for EEG/MEG inverse problems.

PubMed

Liao, Ke; Zhu, Min; Ding, Lei

2013-08-01

The present study investigated the use of transform sparseness of cortical current density on human brain surface to improve electroencephalography/magnetoencephalography (EEG/MEG) inverse solutions. Transform sparseness was assessed by evaluating compressibility of cortical current densities in transform domains. To do that, a structure compression method from computer graphics was first adopted to compress cortical surface structure, either regular or irregular, into hierarchical multi-resolution meshes. Then, a new face-based wavelet method based on generated multi-resolution meshes was proposed to compress current density functions defined on cortical surfaces. Twelve cortical surface models were built by three EEG/MEG softwares and their structural compressibility was evaluated and compared by the proposed method. Monte Carlo simulations were implemented to evaluate the performance of the proposed wavelet method in compressing various cortical current density distributions as compared to other two available vertex-based wavelet methods. The present results indicate that the face-based wavelet method can achieve higher transform sparseness than vertex-based wavelet methods. Furthermore, basis functions from the face-based wavelet method have lower coherence against typical EEG and MEG measurement systems than vertex-based wavelet methods. Both high transform sparseness and low coherent measurements suggest that the proposed face-based wavelet method can improve the performance of L1-norm regularized EEG/MEG inverse solutions, which was further demonstrated in simulations and experimental setups using MEG data. Thus, this new transform on complicated cortical structure is promising to significantly advance EEG/MEG inverse source imaging technologies. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

Exploration of EEG features of Alzheimer's disease using continuous wavelet transform.

PubMed

Ghorbanian, Parham; Devilbiss, David M; Hess, Terry; Bernstein, Allan; Simon, Adam J; Ashrafiuon, Hashem

2015-09-01

We have developed a novel approach to elucidate several discriminating EEG features of Alzheimer's disease. The approach is based on the use of a variety of continuous wavelet transforms, pairwise statistical tests with multiple comparison correction, and several decision tree algorithms, in order to choose the most prominent EEG features from a single sensor. A pilot study was conducted to record EEG signals from Alzheimer's disease (AD) patients and healthy age-matched control (CTL) subjects using a single dry electrode device during several eyes-closed (EC) and eyes-open (EO) resting conditions. We computed the power spectrum distribution properties and wavelet and sample entropy of the wavelet coefficients time series at scale ranges approximately corresponding to the major brain frequency bands. A predictive index was developed using the results from statistical tests and decision tree algorithms to identify the most reliable significant features of the AD patients when compared to healthy controls. The three most dominant features were identified as larger absolute mean power and larger standard deviation of the wavelet scales corresponding to 4-8 Hz (θ) during EO and lower wavelet entropy of the wavelet scales corresponding to 8-12 Hz (α) during EC, respectively. The fourth reliable set of distinguishing features of AD patients was lower relative power of the wavelet scales corresponding to 12-30 Hz (β) followed by lower skewness of the wavelet scales corresponding to 2-4 Hz (upper δ), both during EO. In general, the results indicate slowing and lower complexity of EEG signal in AD patients using a very easy-to-use and convenient single dry electrode device.

Parameters effective on estimating a nonstationary mixed-phase wavelet using cumulant matching approach

NASA Astrophysics Data System (ADS)

Vosoughi, Ehsan; Javaherian, Abdolrahim

2018-01-01

Seismic inversion is a process performed to remove the effects of propagated wavelets in order to recover the acoustic impedance. To obtain valid velocity and density values related to subsurface layers through the inversion process, it is highly essential to perform reliable wavelet estimation such as cumulant matching approach. For this purpose, the seismic data were windowed in this work in such a way that two consecutive windows were only one sample apart. Also, we did not consider any fixed wavelet for any window and let the phase of each wavelet rotate in each sample in the window. Comparing the fourth order cumulant of the whitened trace and fourth-order moment of the all-pass operator in each window generated a cost function that should be minimized with a non-linear optimization method. In this regard, parameters effective on the estimation of the nonstationary mixed-phase wavelets were tested over the created nonstationary seismic trace at 0.82 s and 1.6 s. Besides, we compared the consequences of each parameter on estimated wavelets at two mentioned times. The parameters studied in this work are window length, taper type, the number of iteration, signal-to-noise ratio, bandwidth to central frequency ratio, and Q factor. The results show that applying the optimum values of the effective parameters, the average correlation of the estimated mixed-phase wavelets with the original ones is about 87%. Moreover, the effectiveness of the proposed approach was examined on a synthetic nonstationary seismic section with variable Q factor values alongside the time and offset axis. Eventually, the cumulant matching method was applied on a cross line of the migrated data from a 3D data set of an oilfield in the Persian Gulf. Also, the effect of the wrong Q estimation on the estimated mixed-phase wavelet was considered on the real data set. It is concluded that the accuracy of the estimated wavelet relied on the estimated Q and more than 10% error in the estimated value of Q is acceptable. Eventually, an 88% correlation was found between the estimated mixed-phase wavelets and the original ones for three horizons. The estimated wavelets applied to the data and the result of deconvolution processes was presented.

Extracting fingerprint of wireless devices based on phase noise and multiple level wavelet decomposition

NASA Astrophysics Data System (ADS)

Zhao, Weichen; Sun, Zhuo; Kong, Song

2016-10-01

Wireless devices can be identified by the fingerprint extracted from the signal transmitted, which is useful in wireless communication security and other fields. This paper presents a method that extracts fingerprint based on phase noise of signal and multiple level wavelet decomposition. The phase of signal will be extracted first and then decomposed by multiple level wavelet decomposition. The statistic value of each wavelet coefficient vector is utilized for constructing fingerprint. Besides, the relationship between wavelet decomposition level and recognition accuracy is simulated. And advertised decomposition level is revealed as well. Compared with previous methods, our method is simpler and the accuracy of recognition remains high when Signal Noise Ratio (SNR) is low.

The generalized Morse wavelet method to determine refractive index dispersion of dielectric films

NASA Astrophysics Data System (ADS)

Kocahan, Özlem; Özcan, Seçkin; Coşkun, Emre; Özder, Serhat

2017-04-01

The continuous wavelet transform (CWT) method is a useful tool for the determination of refractive index dispersion of dielectric films. Mother wavelet selection is an important factor for the accuracy of the results when using CWT. In this study, generalized Morse wavelet (GMW) was proposed as the mother wavelet because of having two degrees of freedom. The simulation studies, based on error calculations and Cauchy Coefficient comparisons, were presented and also the noisy signal was tested by CWT method with GMW. The experimental validity of this method was checked by D263 T schott glass having 100 μm thickness and the results were compared to those from the catalog value.

DynamicRoots: A Software Platform for the Reconstruction and Analysis of Growing Plant Roots.

PubMed

Symonova, Olga; Topp, Christopher N; Edelsbrunner, Herbert

2015-01-01

We present a software platform for reconstructing and analyzing the growth of a plant root system from a time-series of 3D voxelized shapes. It aligns the shapes with each other, constructs a geometric graph representation together with the function that records the time of growth, and organizes the branches into a hierarchy that reflects the order of creation. The software includes the automatic computation of structural and dynamic traits for each root in the system enabling the quantification of growth on fine-scale. These are important advances in plant phenotyping with applications to the study of genetic and environmental influences on growth.

Embedded wavelet packet transform technique for texture compression

NASA Astrophysics Data System (ADS)

Li, Jin; Cheng, Po-Yuen; Kuo, C.-C. Jay

1995-09-01

A highly efficient texture compression scheme is proposed in this research. With this scheme, energy compaction of texture images is first achieved by the wavelet packet transform, and an embedding approach is then adopted for the coding of the wavelet packet transform coefficients. By comparing the proposed algorithm with the JPEG standard, FBI wavelet/scalar quantization standard and the EZW scheme with extensive experimental results, we observe a significant improvement in the rate-distortion performance and visual quality.

Wavelet Decomposition for Discrete Probability Maps

DTIC Science & Technology

2007-08-01

using other wavelet basis functions, such as those mentioned in Section 7 15 DSTO–TN–0760 References 1. P. M. Bentley and J . T . E. McDonnell. Wavelet...84, 1995. 0272-1716. 18. E. J . Stollnitz, T . D. DeRose, and D. H. Salesin. Wavelets for computer graphics: a primer. 2. Computer Graphics and...and Computer Modelling in 2006 from the University of South Australia, Mawson Lakes. Part of this de- gree was undertaken at the University of Twente

Evidence for asymmetric inertial instability in the FIRE satellite dataset

NASA Technical Reports Server (NTRS)

Stevens, Duane E.; Ciesielski, Paul E.

1990-01-01

One of the main goals of the First ISCCP Regional Experiment (FIRE) is obtaining the basic knowledge to better interpret satellite image of clouds on regional and smaller scales. An analysis of a mesoscale circulation phenomenon as observed in hourly FIRE satellite images is presented. Specifically, the phenomenon of interest appeared on satellite images as a group of propagating cloud wavelets located on the edge of a cirrus canopy on the anticylonic side of a strong, upper-level subtropical jet. These wavelets, which were observed between 1300 and 2200 GMT on 25 February 1987, are seen most distinctly in the GOES-West infrared satellite picture at 1800 GMT. The purpose is to document that these wavelets were a manifestation of asymmetric inertial instability. During their lifetime, the wavelets were located over the North American synoptic sounding network, so that the meteorological conditions surrounding their occurrence could be examined. A particular emphasis of the analysis is on the jet streak in which the wavelets were imbedded. The characteristics of the wavelets are examined using hourly satellite imagery. The hypothesis that inertial instability is the dynamical mechanism responsible for generating the observed cloud wavelets was examined. To further substantiate this contention, the observed characteristics of the wavelets are compared to, and found to be consistent with, a theoretical model of inertia instability by Stevens and Ciesielski.

Most suitable mother wavelet for the analysis of fractal properties of stride interval time series via the average wavelet coefficient

PubMed Central

Zhang, Zhenwei; VanSwearingen, Jessie; Brach, Jennifer S.; Perera, Subashan

2016-01-01

Human gait is a complex interaction of many nonlinear systems and stride intervals exhibit self-similarity over long time scales that can be modeled as a fractal process. The scaling exponent represents the fractal degree and can be interpreted as a biomarker of relative diseases. The previous study showed that the average wavelet method provides the most accurate results to estimate this scaling exponent when applied to stride interval time series. The purpose of this paper is to determine the most suitable mother wavelet for the average wavelet method. This paper presents a comparative numerical analysis of sixteen mother wavelets using simulated and real fractal signals. Simulated fractal signals were generated under varying signal lengths and scaling exponents that indicate a range of physiologically conceivable fractal signals. The five candidates were chosen due to their good performance on the mean square error test for both short and long signals. Next, we comparatively analyzed these five mother wavelets for physiologically relevant stride time series lengths. Our analysis showed that the symlet 2 mother wavelet provides a low mean square error and low variance for long time intervals and relatively low errors for short signal lengths. It can be considered as the most suitable mother function without the burden of considering the signal length. PMID:27960102

Hierarchical analysis of spatial pattern and processes of Douglas-fir forests. Ph.D. Thesis, 10 Sep. 1991 Abstract Only

NASA Technical Reports Server (NTRS)

Bradshaw, G. A.

1995-01-01

There has been an increased interest in the quantification of pattern in ecological systems over the past years. This interest is motivated by the desire to construct valid models which extend across many scales. Spatial methods must quantify pattern, discriminate types of pattern, and relate hierarchical phenomena across scales. Wavelet analysis is introduced as a method to identify spatial structure in ecological transect data. The main advantage of the wavelet transform over other methods is its ability to preserve and display hierarchical information while allowing for pattern decomposition. Two applications of wavelet analysis are illustrated, as a means to: (1) quantify known spatial patterns in Douglas-fir forests at several scales, and (2) construct spatially-explicit hypotheses regarding pattern generating mechanisms. Application of the wavelet variance, derived from the wavelet transform, is developed for forest ecosystem analysis to obtain additional insight into spatially-explicit data. Specifically, the resolution capabilities of the wavelet variance are compared to the semi-variogram and Fourier power spectra for the description of spatial data using a set of one-dimensional stationary and non-stationary processes. The wavelet cross-covariance function is derived from the wavelet transform and introduced as a alternative method for the analysis of multivariate spatial data of understory vegetation and canopy in Douglas-fir forests of the western Cascades of Oregon.

Image processing for quantifying fracture orientation and length scale transitions during brittle deformation

NASA Astrophysics Data System (ADS)

Rizzo, R. E.; Healy, D.; Farrell, N. J.

2017-12-01

We have implemented a novel image processing tool, namely two-dimensional (2D) Morlet wavelet analysis, capable of detecting changes occurring in fracture patterns at different scales of observation, and able of recognising the dominant fracture orientations and the spatial configurations for progressively larger (or smaller) scale of analysis. Because of its inherited anisotropy, the Morlet wavelet is proved to be an excellent choice for detecting directional linear features, i.e. regions where the amplitude of the signal is regular along one direction and has sharp variation along the perpendicular direction. Performances of the Morlet wavelet are tested against the 'classic' Mexican hat wavelet, deploying a complex synthetic fracture network. When applied to a natural fracture network, formed triaxially (σ1>σ2=σ3) deforming a core sample of the Hopeman sandstone, the combination of 2D Morlet wavelet and wavelet coefficient maps allows for the detection of characteristic scale orientation and length transitions, associated with the shifts from distributed damage to the growth of localised macroscopic shear fracture. A complementary outcome arises from the wavelet coefficient maps produced by increasing the wavelet scale parameter. These maps can be used to chart the variations in the spatial distribution of the analysed entities, meaning that it is possible to retrieve information on the density of fracture patterns at specific length scales during deformation.

Continuous Wavelet Transform Analysis of Acceleration Signals Measured from a Wave Buoy

PubMed Central

Chuang, Laurence Zsu-Hsin; Wu, Li-Chung; Wang, Jong-Hao

2013-01-01

Accelerometers, which can be installed inside a floating platform on the sea, are among the most commonly used sensors for operational ocean wave measurements. To examine the non-stationary features of ocean waves, this study was conducted to derive a wavelet spectrum of ocean waves and to synthesize sea surface elevations from vertical acceleration signals of a wave buoy through the continuous wavelet transform theory. The short-time wave features can be revealed by simultaneously examining the wavelet spectrum and the synthetic sea surface elevations. The in situ wave signals were applied to verify the practicality of the wavelet-based algorithm. We confirm that the spectral leakage and the noise at very-low-frequency bins influenced the accuracies of the estimated wavelet spectrum and the synthetic sea surface elevations. The appropriate thresholds of these two factors were explored. To study the short-time wave features from the wave records, the acceleration signals recorded from an accelerometer inside a discus wave buoy are analysed. The results from the wavelet spectrum show the evidence of short-time nonlinear wave events. Our study also reveals that more surface profiles with higher vertical asymmetry can be found from short-time nonlinear wave with stronger harmonic spectral peak. Finally, we conclude that the algorithms of continuous wavelet transform are practical for revealing the short-time wave features of the buoy acceleration signals. PMID:23966188

Energy-Based Wavelet De-Noising of Hydrologic Time Series

PubMed Central

Sang, Yan-Fang; Liu, Changming; Wang, Zhonggen; Wen, Jun; Shang, Lunyu

2014-01-01

De-noising is a substantial issue in hydrologic time series analysis, but it is a difficult task due to the defect of methods. In this paper an energy-based wavelet de-noising method was proposed. It is to remove noise by comparing energy distribution of series with the background energy distribution, which is established from Monte-Carlo test. Differing from wavelet threshold de-noising (WTD) method with the basis of wavelet coefficient thresholding, the proposed method is based on energy distribution of series. It can distinguish noise from deterministic components in series, and uncertainty of de-noising result can be quantitatively estimated using proper confidence interval, but WTD method cannot do this. Analysis of both synthetic and observed series verified the comparable power of the proposed method and WTD, but de-noising process by the former is more easily operable. The results also indicate the influences of three key factors (wavelet choice, decomposition level choice and noise content) on wavelet de-noising. Wavelet should be carefully chosen when using the proposed method. The suitable decomposition level for wavelet de-noising should correspond to series' deterministic sub-signal which has the smallest temporal scale. If too much noise is included in a series, accurate de-noising result cannot be obtained by the proposed method or WTD, but the series would show pure random but not autocorrelation characters, so de-noising is no longer needed. PMID:25360533

The ssWavelets package

Treesearch

Jeffrey H. Gove

2017-01-01

This package adds several classes, generics and associated methods as well as a few various functions to help with wavelet decomposition of sampling surfaces generated using sampSurf. As such, it can be thought of as an extension to sampSurf for wavelet analysis.

The Wavelet ToolKat: A set of tools for the analysis of series through wavelet transforms. Application to the channel curvature and the slope control of three free meandering rivers in the Amazon basin.

NASA Astrophysics Data System (ADS)

Vaudor, Lise; Piegay, Herve; Wawrzyniak, Vincent; Spitoni, Marie

2016-04-01

The form and functioning of a geomorphic system result from processes operating at various spatial and temporal scales. Longitudinal channel characteristics thus exhibit complex patterns which vary according to the scale of study, might be periodic or segmented, and are generally blurred by noise. Describing the intricate, multiscale structure of such signals, and identifying at which scales the patterns are dominant and over which sub-reach, could help determine at which scales they should be investigated, and provide insights into the main controlling factors. Wavelet transforms aim at describing data at multiple scales (either in time or space), and are now exploited in geophysics for the analysis of nonstationary series of data. They provide a consistent, non-arbitrary, and multiscale description of a signal's variations and help explore potential causalities. Nevertheless, their use in fluvial geomorphology, notably to study longitudinal patterns, is hindered by a lack of user-friendly tools to help understand, implement, and interpret them. We have developed a free application, The Wavelet ToolKat, designed to facilitate the use of wavelet transforms on temporal or spatial series. We illustrate its usefulness describing longitudinal channel curvature and slope of three freely meandering rivers in the Amazon basin (the Purus, Juruá and Madre de Dios rivers), using topographic data generated from NASA's Shuttle Radar Topography Mission (SRTM) in 2000. Three types of wavelet transforms are used, with different purposes. Continuous Wavelet Transforms are used to identify in a non-arbitrary way the dominant scales and locations at which channel curvature and slope vary. Cross-wavelet transforms, and wavelet coherence and phase are used to identify scales and locations exhibiting significant channel curvature and slope co-variations. Maximal Overlap Discrete Wavelet Transforms decompose data into their variations at a series of scales and are used to provide smoothed descriptions of the series at the scales deemed relevant.

Forecasting of particulate matter time series using wavelet analysis and wavelet-ARMA/ARIMA model in Taiyuan, China.

PubMed

Zhang, Hong; Zhang, Sheng; Wang, Ping; Qin, Yuzhe; Wang, Huifeng

2017-07-01

Particulate matter with aerodynamic diameter below 10 μm (PM 10 ) forecasting is difficult because of the uncertainties in describing the emission and meteorological fields. This paper proposed a wavelet-ARMA/ARIMA model to forecast the short-term series of the PM 10 concentrations. It was evaluated by experiments using a 10-year data set of daily PM 10 concentrations from 4 stations located in Taiyuan, China. The results indicated the following: (1) PM 10 concentrations of Taiyuan had a decreasing trend during 2005 to 2012 but increased in 2013. PM 10 concentrations had an obvious seasonal fluctuation related to coal-fired heating in winter and early spring. (2) Spatial differences among the four stations showed that the PM 10 concentrations in industrial and heavily trafficked areas were higher than those in residential and suburb areas. (3) Wavelet analysis revealed that the trend variation and the changes of the PM 10 concentration of Taiyuan were complicated. (4) The proposed wavelet-ARIMA model could be efficiently and successfully applied to the PM 10 forecasting field. Compared with the traditional ARMA/ARIMA methods, this wavelet-ARMA/ARIMA method could effectively reduce the forecasting error, improve the prediction accuracy, and realize multiple-time-scale prediction. Wavelet analysis can filter noisy signals and identify the variation trend and the fluctuation of the PM 10 time-series data. Wavelet decomposition and reconstruction reduce the nonstationarity of the PM 10 time-series data, and thus improve the accuracy of the prediction. This paper proposed a wavelet-ARMA/ARIMA model to forecast the PM 10 time series. Compared with the traditional ARMA/ARIMA method, this wavelet-ARMA/ARIMA method could effectively reduce the forecasting error, improve the prediction accuracy, and realize multiple-time-scale prediction. The proposed model could be efficiently and successfully applied to the PM 10 forecasting field.

Wavelet entropy of BOLD time series: An application to Rolandic epilepsy.

PubMed

Gupta, Lalit; Jansen, Jacobus F A; Hofman, Paul A M; Besseling, René M H; de Louw, Anton J A; Aldenkamp, Albert P; Backes, Walter H

2017-12-01

To assess the wavelet entropy for the characterization of intrinsic aberrant temporal irregularities in the time series of resting-state blood-oxygen-level-dependent (BOLD) signal fluctuations. Further, to evaluate the temporal irregularities (disorder/order) on a voxel-by-voxel basis in the brains of children with Rolandic epilepsy. The BOLD time series was decomposed using the discrete wavelet transform and the wavelet entropy was calculated. Using a model time series consisting of multiple harmonics and nonstationary components, the wavelet entropy was compared with Shannon and spectral (Fourier-based) entropy. As an application, the wavelet entropy in 22 children with Rolandic epilepsy was compared to 22 age-matched healthy controls. The images were obtained by performing resting-state functional magnetic resonance imaging (fMRI) using a 3T system, an 8-element receive-only head coil, and an echo planar imaging pulse sequence ( T2*-weighted). The wavelet entropy was also compared to spectral entropy, regional homogeneity, and Shannon entropy. Wavelet entropy was found to identify the nonstationary components of the model time series. In Rolandic epilepsy patients, a significantly elevated wavelet entropy was observed relative to controls for the whole cerebrum (P = 0.03). Spectral entropy (P = 0.41), regional homogeneity (P = 0.52), and Shannon entropy (P = 0.32) did not reveal significant differences. The wavelet entropy measure appeared more sensitive to detect abnormalities in cerebral fluctuations represented by nonstationary effects in the BOLD time series than more conventional measures. This effect was observed in the model time series as well as in Rolandic epilepsy. These observations suggest that the brains of children with Rolandic epilepsy exhibit stronger nonstationary temporal signal fluctuations than controls. 2 Technical Efficacy: Stage 3 J. Magn. Reson. Imaging 2017;46:1728-1737. © 2017 International Society for Magnetic Resonance in Medicine.

Wavelet-based fMRI analysis: 3-D denoising, signal separation, and validation metrics

PubMed Central

Khullar, Siddharth; Michael, Andrew; Correa, Nicolle; Adali, Tulay; Baum, Stefi A.; Calhoun, Vince D.

2010-01-01

We present a novel integrated wavelet-domain based framework (w-ICA) for 3-D de-noising functional magnetic resonance imaging (fMRI) data followed by source separation analysis using independent component analysis (ICA) in the wavelet domain. We propose the idea of a 3-D wavelet-based multi-directional de-noising scheme where each volume in a 4-D fMRI data set is sub-sampled using the axial, sagittal and coronal geometries to obtain three different slice-by-slice representations of the same data. The filtered intensity value of an arbitrary voxel is computed as an expected value of the de-noised wavelet coefficients corresponding to the three viewing geometries for each sub-band. This results in a robust set of de-noised wavelet coefficients for each voxel. Given the decorrelated nature of these de-noised wavelet coefficients; it is possible to obtain more accurate source estimates using ICA in the wavelet domain. The contributions of this work can be realized as two modules. First, the analysis module where we combine a new 3-D wavelet denoising approach with better signal separation properties of ICA in the wavelet domain, to yield an activation component that corresponds closely to the true underlying signal and is maximally independent with respect to other components. Second, we propose and describe two novel shape metrics for post-ICA comparisons between activation regions obtained through different frameworks. We verified our method using simulated as well as real fMRI data and compared our results against the conventional scheme (Gaussian smoothing + spatial ICA: s-ICA). The results show significant improvements based on two important features: (1) preservation of shape of the activation region (shape metrics) and (2) receiver operating characteristic (ROC) curves. It was observed that the proposed framework was able to preserve the actual activation shape in a consistent manner even for very high noise levels in addition to significant reduction in false positives voxels. PMID:21034833

Admissible Diffusion Wavelets and Their Applications in Space-Frequency Processing.

PubMed

Hou, Tingbo; Qin, Hong

2013-01-01

As signal processing tools, diffusion wavelets and biorthogonal diffusion wavelets have been propelled by recent research in mathematics. They employ diffusion as a smoothing and scaling process to empower multiscale analysis. However, their applications in graphics and visualization are overshadowed by nonadmissible wavelets and their expensive computation. In this paper, our motivation is to broaden the application scope to space-frequency processing of shape geometry and scalar fields. We propose the admissible diffusion wavelets (ADW) on meshed surfaces and point clouds. The ADW are constructed in a bottom-up manner that starts from a local operator in a high frequency, and dilates by its dyadic powers to low frequencies. By relieving the orthogonality and enforcing normalization, the wavelets are locally supported and admissible, hence facilitating data analysis and geometry processing. We define the novel rapid reconstruction, which recovers the signal from multiple bands of high frequencies and a low-frequency base in full resolution. It enables operations localized in both space and frequency by manipulating wavelet coefficients through space-frequency filters. This paper aims to build a common theoretic foundation for a host of applications, including saliency visualization, multiscale feature extraction, spectral geometry processing, etc.

S2LET: A code to perform fast wavelet analysis on the sphere

NASA Astrophysics Data System (ADS)

Leistedt, B.; McEwen, J. D.; Vandergheynst, P.; Wiaux, Y.

2013-10-01

We describe S2LET, a fast and robust implementation of the scale-discretised wavelet transform on the sphere. Wavelets are constructed through a tiling of the harmonic line and can be used to probe spatially localised, scale-dependent features of signals on the sphere. The reconstruction of a signal from its wavelets coefficients is made exact here through the use of a sampling theorem on the sphere. Moreover, a multiresolution algorithm is presented to capture all information of each wavelet scale in the minimal number of samples on the sphere. In addition S2LET supports the HEALPix pixelisation scheme, in which case the transform is not exact but nevertheless achieves good numerical accuracy. The core routines of S2LET are written in C and have interfaces in Matlab, IDL and Java. Real signals can be written to and read from FITS files and plotted as Mollweide projections. The S2LET code is made publicly available, is extensively documented, and ships with several examples in the four languages supported. At present the code is restricted to axisymmetric wavelets but will be extended to directional, steerable wavelets in a future release.

Acoustic emission detection for mass fractions of materials based on wavelet packet technology.

PubMed

Wang, Xianghong; Xiang, Jianjun; Hu, Hongwei; Xie, Wei; Li, Xiongbing

2015-07-01

Materials are often damaged during the process of detecting mass fractions by traditional methods. Acoustic emission (AE) technology combined with wavelet packet analysis is used to evaluate the mass fractions of microcrystalline graphite/polyvinyl alcohol (PVA) composites in this study. Attenuation characteristics of AE signals across the composites with different mass fractions are investigated. The AE signals are decomposed by wavelet packet technology to obtain the relationships between the energy and amplitude attenuation coefficients of feature wavelet packets and mass fractions as well. Furthermore, the relationship is validated by a sample. The larger proportion of microcrystalline graphite will correspond to the higher attenuation of energy and amplitude. The attenuation characteristics of feature wavelet packets with the frequency range from 125 kHz to 171.85 kHz are more suitable for the detection of mass fractions than those of the original AE signals. The error of the mass fraction of microcrystalline graphite calculated by the feature wavelet packet (1.8%) is lower than that of the original signal (3.9%). Therefore, AE detection base on wavelet packet analysis is an ideal NDT method for evaluate mass fractions of composite materials. Copyright © 2015 Elsevier B.V. All rights reserved.

Segmentation-based wavelet transform for still-image compression

NASA Astrophysics Data System (ADS)

Mozelle, Gerard; Seghier, Abdellatif; Preteux, Francoise J.

1996-10-01

In order to address simultaneously the two functionalities, content-based scalability required by MPEG-4, we introduce a segmentation-based wavelet transform (SBWT). SBWT takes into account both the mathematical properties of multiresolution analysis and the flexibility of region-based approaches for image compression. The associated methodology has two stages: 1) image segmentation into convex and polygonal regions; 2) 2D-wavelet transform of the signal corresponding to each region. In this paper, we have mathematically studied a method for constructing a multiresolution analysis (VjOmega)j (epsilon) N adapted to a polygonal region which provides an adaptive region-based filtering. The explicit construction of scaling functions, pre-wavelets and orthonormal wavelets bases defined on a polygon is carried out by using scaling functions is established by using the theory of Toeplitz operators. The corresponding expression can be interpreted as a location property which allow defining interior and boundary scaling functions. Concerning orthonormal wavelets and pre-wavelets, a similar expansion is obtained by taking advantage of the properties of the orthogonal projector P(V(j(Omega )) perpendicular from the space Vj(Omega ) + 1 onto the space (Vj(Omega )) perpendicular. Finally the mathematical results provide a simple and fast algorithm adapted to polygonal regions.

Wavelet Types Comparison for Extracting Iris Feature Based on Energy Compaction

NASA Astrophysics Data System (ADS)

Rizal Isnanto, R.

2015-06-01

Human iris has a very unique pattern which is possible to be used as a biometric recognition. To identify texture in an image, texture analysis method can be used. One of method is wavelet that extract the image feature based on energy. Wavelet transforms used are Haar, Daubechies, Coiflets, Symlets, and Biorthogonal. In the research, iris recognition based on five mentioned wavelets was done and then comparison analysis was conducted for which some conclusions taken. Some steps have to be done in the research. First, the iris image is segmented from eye image then enhanced with histogram equalization. The features obtained is energy value. The next step is recognition using normalized Euclidean distance. Comparison analysis is done based on recognition rate percentage with two samples stored in database for reference images. After finding the recognition rate, some tests are conducted using Energy Compaction for all five types of wavelets above. As the result, the highest recognition rate is achieved using Haar, whereas for coefficients cutting for C(i) < 0.1, Haar wavelet has a highest percentage, therefore the retention rate or significan coefficient retained for Haaris lower than other wavelet types (db5, coif3, sym4, and bior2.4)

The 6th International Conference on Computer Science and Computational Mathematics (ICCSCM 2017)

NASA Astrophysics Data System (ADS)

2017-09-01

The ICCSCM 2017 (The 6th International Conference on Computer Science and Computational Mathematics) has aimed to provide a platform to discuss computer science and mathematics related issues including Algebraic Geometry, Algebraic Topology, Approximation Theory, Calculus of Variations, Category Theory; Homological Algebra, Coding Theory, Combinatorics, Control Theory, Cryptology, Geometry, Difference and Functional Equations, Discrete Mathematics, Dynamical Systems and Ergodic Theory, Field Theory and Polynomials, Fluid Mechanics and Solid Mechanics, Fourier Analysis, Functional Analysis, Functions of a Complex Variable, Fuzzy Mathematics, Game Theory, General Algebraic Systems, Graph Theory, Group Theory and Generalizations, Image Processing, Signal Processing and Tomography, Information Fusion, Integral Equations, Lattices, Algebraic Structures, Linear and Multilinear Algebra; Matrix Theory, Mathematical Biology and Other Natural Sciences, Mathematical Economics and Financial Mathematics, Mathematical Physics, Measure Theory and Integration, Neutrosophic Mathematics, Number Theory, Numerical Analysis, Operations Research, Optimization, Operator Theory, Ordinary and Partial Differential Equations, Potential Theory, Real Functions, Rings and Algebras, Statistical Mechanics, Structure Of Matter, Topological Groups, Wavelets and Wavelet Transforms, 3G/4G Network Evolutions, Ad-Hoc, Mobile, Wireless Networks and Mobile Computing, Agent Computing & Multi-Agents Systems, All topics related Image/Signal Processing, Any topics related Computer Networks, Any topics related ISO SC-27 and SC- 17 standards, Any topics related PKI(Public Key Intrastructures), Artifial Intelligences(A.I.) & Pattern/Image Recognitions, Authentication/Authorization Issues, Biometric authentication and algorithms, CDMA/GSM Communication Protocols, Combinatorics, Graph Theory, and Analysis of Algorithms, Cryptography and Foundation of Computer Security, Data Base(D.B.) Management & Information Retrievals, Data Mining, Web Image Mining, & Applications, Defining Spectrum Rights and Open Spectrum Solutions, E-Comerce, Ubiquitous, RFID, Applications, Fingerprint/Hand/Biometrics Recognitions and Technologies, Foundations of High-performance Computing, IC-card Security, OTP, and Key Management Issues, IDS/Firewall, Anti-Spam mail, Anti-virus issues, Mobile Computing for E-Commerce, Network Security Applications, Neural Networks and Biomedical Simulations, Quality of Services and Communication Protocols, Quantum Computing, Coding, and Error Controls, Satellite and Optical Communication Systems, Theory of Parallel Processing and Distributed Computing, Virtual Visions, 3-D Object Retrievals, & Virtual Simulations, Wireless Access Security, etc. The success of ICCSCM 2017 is reflected in the received papers from authors around the world from several countries which allows a highly multinational and multicultural idea and experience exchange. The accepted papers of ICCSCM 2017 are published in this Book. Please check http://www.iccscm.com for further news. A conference such as ICCSCM 2017 can only become successful using a team effort, so herewith we want to thank the International Technical Committee and the Reviewers for their efforts in the review process as well as their valuable advices. We are thankful to all those who contributed to the success of ICCSCM 2017. The Secretary

Necessary and sufficient conditions for discrete wavelet frames in CN

NASA Astrophysics Data System (ADS)

Deepshikha; Vashisht, Lalit K.

2017-07-01

We present necessary and sufficient conditions with explicit frame bounds for a discrete wavelet system of the form {DaTk ϕ } a ∈ U(N) , k ∈IN to be a frame for the unitary space CN. It is shown that the canonical dual of a discrete wavelet frame for CN has the same structure. This is not true (well known) for canonical dual of a wavelet frame for L2(R) . Several numerical examples are given to illustrate the results.

Skin image retrieval using Gabor wavelet texture feature.

PubMed

Ou, X; Pan, W; Zhang, X; Xiao, P

2016-12-01

Skin imaging plays a key role in many clinical studies. We have used many skin imaging techniques, including the recently developed capacitive contact skin imaging based on fingerprint sensors. The aim of this study was to develop an effective skin image retrieval technique using Gabor wavelet transform, which can be used on different types of skin images, but with a special focus on skin capacitive contact images. Content-based image retrieval (CBIR) is a useful technology to retrieve stored images from database by supplying query images. In a typical CBIR, images are retrieved based on colour, shape, texture, etc. In this study, texture feature is used for retrieving skin images, and Gabor wavelet transform is used for texture feature description and extraction. The results show that the Gabor wavelet texture features can work efficiently on different types of skin images. Although Gabor wavelet transform is slower compared with other image retrieval techniques, such as principal component analysis (PCA) and grey-level co-occurrence matrix (GLCM), Gabor wavelet transform is the best for retrieving skin capacitive contact images and facial images with different orientations. Gabor wavelet transform can also work well on facial images with different expressions and skin cancer/disease images. We have developed an effective skin image retrieval method based on Gabor wavelet transform, that it is useful for retrieving different types of images, namely digital colour face images, digital colour skin cancer and skin disease images, and particularly greyscale skin capacitive contact images. Gabor wavelet transform can also be potentially useful for face recognition (with different orientation and expressions) and skin cancer/disease diagnosis. © 2016 Society of Cosmetic Scientists and the Société Française de Cosmétologie.

Necessary and sufficient condition for the realization of the complex wavelet

NASA Astrophysics Data System (ADS)

Keita, Alpha; Qing, Qianqin; Wang, Nengchao

1997-04-01

Wavelet theory is a whole new signal analysis theory in recent years, and the appearance of which is attracting lots of experts in many different fields giving it a deepen study. Wavelet transformation is a new kind of time. Frequency domain analysis method of localization in can-be- realized time domain or frequency domain. It has many perfect characteristics that many other kinds of time frequency domain analysis, such as Gabor transformation or Viginier. For example, it has orthogonality, direction selectivity, variable time-frequency domain resolution ratio, adjustable local support, parsing data in little amount, and so on. All those above make wavelet transformation a very important new tool and method in signal analysis field. Because the calculation of complex wavelet is very difficult, in application, real wavelet function is used. In this paper, we present a necessary and sufficient condition that the real wavelet function can be obtained by the complex wavelet function. This theorem has some significant values in theory. The paper prepares its technique from Hartley transformation, then, it gives the complex wavelet was a signal engineering expert. His Hartley transformation, which also mentioned by Hartley, had been overlooked for about 40 years, for the social production conditions at that time cannot help to show its superiority. Only when it came to the end of 70s and the early 80s, after the development of the fast algorithm of Fourier transformation and the hardware implement to some degree, the completely some positive-negative transforming method was coming to take seriously. W transformation, which mentioned by Zhongde Wang, pushed the studying work of Hartley transformation and its fast algorithm forward. The kernel function of Hartley transformation.

Wavelets and the squeezed states of quantum optics

NASA Technical Reports Server (NTRS)

Defacio, B.

1992-01-01

Wavelets are new mathematical objects which act as 'designer trigonometric functions.' To obtain a wavelet, the original function space of finite energy signals is generalized to a phase-space, and the translation operator in the original space has a scale change in the new variable adjoined to the translation. Localization properties in the phase-space can be improved and unconditional bases are obtained for a broad class of function and distribution spaces. Operators in phase space are 'almost diagonal' instead of the traditional condition of being diagonal in the original function space. These wavelets are applied to the squeezed states of quantum optics. The scale change required for a quantum wavelet is shown to be a Yuen squeeze operator acting on an arbitrary density operator.

Multi-resolution analysis for ear recognition using wavelet features

NASA Astrophysics Data System (ADS)

Shoaib, M.; Basit, A.; Faye, I.

2016-11-01

Security is very important and in order to avoid any physical contact, identification of human when they are moving is necessary. Ear biometric is one of the methods by which a person can be identified using surveillance cameras. Various techniques have been proposed to increase the ear based recognition systems. In this work, a feature extraction method for human ear recognition based on wavelet transforms is proposed. The proposed features are approximation coefficients and specific details of level two after applying various types of wavelet transforms. Different wavelet transforms are applied to find the suitable wavelet. Minimum Euclidean distance is used as a matching criterion. Results achieved by the proposed method are promising and can be used in real time ear recognition system.

Non-stationary dynamics in the bouncing ball: A wavelet perspective

DOE Office of Scientific and Technical Information (OSTI.GOV)

Behera, Abhinna K., E-mail: abhinna@iiserkol.ac.in; Panigrahi, Prasanta K., E-mail: pprasanta@iiserkol.ac.in; Sekar Iyengar, A. N., E-mail: ansekar.iyengar@saha.ac.in

2014-12-01

The non-stationary dynamics of a bouncing ball, comprising both periodic as well as chaotic behavior, is studied through wavelet transform. The multi-scale characterization of the time series displays clear signatures of self-similarity, complex scaling behavior, and periodicity. Self-similar behavior is quantified by the generalized Hurst exponent, obtained through both wavelet based multi-fractal detrended fluctuation analysis and Fourier methods. The scale dependent variable window size of the wavelets aptly captures both the transients and non-stationary periodic behavior, including the phase synchronization of different modes. The optimal time-frequency localization of the continuous Morlet wavelet is found to delineate the scales corresponding tomore » neutral turbulence, viscous dissipation regions, and different time varying periodic modulations.« less

[Recognition of landscape characteristic scale based on two-dimension wavelet analysis].

PubMed

Gao, Yan-Ni; Chen, Wei; He, Xing-Yuan; Li, Xiao-Yu

2010-06-01

Three wavelet bases, i. e., Haar, Daubechies, and Symlet, were chosen to analyze the validity of two-dimension wavelet analysis in recognizing the characteristic scales of the urban, peri-urban, and rural landscapes of Shenyang. Owing to the transform scale of two-dimension wavelet must be the integer power of 2, some characteristic scales cannot be accurately recognized. Therefore, the pixel resolution of images was resampled to 3, 3.5, 4, and 4.5 m to densify the scale in analysis. It was shown that two-dimension wavelet analysis worked effectively in checking characteristic scale. Haar, Daubechies, and Symle were the optimal wavelet bases to the peri-urban landscape, urban landscape, and rural landscape, respectively. Both Haar basis and Symlet basis played good roles in recognizing the fine characteristic scale of rural landscape and in detecting the boundary of peri-urban landscape. Daubechies basis and Symlet basis could be also used to detect the boundary of urban landscape and rural landscape, respectively.

Wavelet-enhanced convolutional neural network: a new idea in a deep learning paradigm.

PubMed

Savareh, Behrouz Alizadeh; Emami, Hassan; Hajiabadi, Mohamadreza; Azimi, Seyed Majid; Ghafoori, Mahyar

2018-05-29

Manual brain tumor segmentation is a challenging task that requires the use of machine learning techniques. One of the machine learning techniques that has been given much attention is the convolutional neural network (CNN). The performance of the CNN can be enhanced by combining other data analysis tools such as wavelet transform. In this study, one of the famous implementations of CNN, a fully convolutional network (FCN), was used in brain tumor segmentation and its architecture was enhanced by wavelet transform. In this combination, a wavelet transform was used as a complementary and enhancing tool for CNN in brain tumor segmentation. Comparing the performance of basic FCN architecture against the wavelet-enhanced form revealed a remarkable superiority of enhanced architecture in brain tumor segmentation tasks. Using mathematical functions and enhancing tools such as wavelet transform and other mathematical functions can improve the performance of CNN in any image processing task such as segmentation and classification.

The wavelet response as a multiscale characterization of scattering processes at granular interfaces.

PubMed

Le Gonidec, Yves; Gibert, Dominique

2006-11-01

We perform a multiscale analysis of the backscattering properties of a complex interface between water and a layer of randomly arranged glass beads with diameter D=1 mm. An acoustical experiment is done to record the wavelet response of the interface in a large frequency range from lambda/D=0.3 to lambda/D=15. The wavelet response is a physical analog of the mathematical wavelet transform which possesses nice properties to detect and characterize abrupt changes in signals. The experimental wavelet response allows to identify five frequency domains corresponding to different backscattering properties of the complex interface. This puts quantitative limits to the validity domains of the models used to represent the interface and which are flat elastic, flat visco-elastic, rough random half-space with multiple scattering, and rough elastic from long to short wavelengths respectively. A physical explanation based on Mie scattering theory is proposed to explain the origin of the five frequency domains identified in the wavelet response.

Wavelet methodology to improve single unit isolation in primary motor cortex cells

PubMed Central

Ortiz-Rosario, Alexis; Adeli, Hojjat; Buford, John A.

2016-01-01

The proper isolation of action potentials recorded extracellularly from neural tissue is an active area of research in the fields of neuroscience and biomedical signal processing. This paper presents an isolation methodology for neural recordings using the wavelet transform (WT), a statistical thresholding scheme, and the principal component analysis (PCA) algorithm. The effectiveness of five different mother wavelets was investigated: biorthogonal, Daubachies, discrete Meyer, symmetric, and Coifman; along with three different wavelet coefficient thresholding schemes: fixed form threshold, Stein’s unbiased estimate of risk, and minimax; and two different thresholding rules: soft and hard thresholding. The signal quality was evaluated using three different statistical measures: mean-squared error, root-mean squared, and signal to noise ratio. The clustering quality was evaluated using two different statistical measures: isolation distance, and L-ratio. This research shows that the selection of the mother wavelet has a strong influence on the clustering and isolation of single unit neural activity, with the Daubachies 4 wavelet and minimax thresholding scheme performing the best. PMID:25794461

Evaluating the Efficacy of Wavelet Configurations on Turbulent-Flow Data

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Shaomeng; Gruchalla, Kenny; Potter, Kristin

2015-10-25

I/O is increasingly becoming a significant constraint for simulation codes and visualization tools on modern supercomputers. Data compression is an attractive workaround, and, in particular, wavelets provide a promising solution. However, wavelets can be applied in multiple configurations, and the variations in configuration impact accuracy, storage cost, and execution time. While the variation in these factors over wavelet configurations have been explored in image processing, they are not well understood for visualization and analysis of scientific data. To illuminate this issue, we evaluate multiple wavelet configurations on turbulent-flow data. Our approach is to repeat established analysis routines on uncompressed andmore » lossy-compressed versions of a data set, and then quantitatively compare their outcomes. Our findings show that accuracy varies greatly based on wavelet configuration, while storage cost and execution time vary less. Overall, our study provides new insights for simulation analysts and visualization experts, who need to make tradeoffs between accuracy, storage cost, and execution time.« less

Evolutionary Wavelet Neural Network ensembles for breast cancer and Parkinson's disease prediction.

PubMed

Khan, Maryam Mahsal; Mendes, Alexandre; Chalup, Stephan K

2018-01-01

Wavelet Neural Networks are a combination of neural networks and wavelets and have been mostly used in the area of time-series prediction and control. Recently, Evolutionary Wavelet Neural Networks have been employed to develop cancer prediction models. The present study proposes to use ensembles of Evolutionary Wavelet Neural Networks. The search for a high quality ensemble is directed by a fitness function that incorporates the accuracy of the classifiers both independently and as part of the ensemble itself. The ensemble approach is tested on three publicly available biomedical benchmark datasets, one on Breast Cancer and two on Parkinson's disease, using a 10-fold cross-validation strategy. Our experimental results show that, for the first dataset, the performance was similar to previous studies reported in literature. On the second dataset, the Evolutionary Wavelet Neural Network ensembles performed better than all previous methods. The third dataset is relatively new and this study is the first to report benchmark results.

Evolutionary Wavelet Neural Network ensembles for breast cancer and Parkinson’s disease prediction

PubMed Central

Mendes, Alexandre; Chalup, Stephan K.

2018-01-01

Wavelet Neural Networks are a combination of neural networks and wavelets and have been mostly used in the area of time-series prediction and control. Recently, Evolutionary Wavelet Neural Networks have been employed to develop cancer prediction models. The present study proposes to use ensembles of Evolutionary Wavelet Neural Networks. The search for a high quality ensemble is directed by a fitness function that incorporates the accuracy of the classifiers both independently and as part of the ensemble itself. The ensemble approach is tested on three publicly available biomedical benchmark datasets, one on Breast Cancer and two on Parkinson’s disease, using a 10-fold cross-validation strategy. Our experimental results show that, for the first dataset, the performance was similar to previous studies reported in literature. On the second dataset, the Evolutionary Wavelet Neural Network ensembles performed better than all previous methods. The third dataset is relatively new and this study is the first to report benchmark results. PMID:29420578

Full-wave multiscale anisotropy tomography in Southern California

NASA Astrophysics Data System (ADS)

Lin, Yu-Pin; Zhao, Li; Hung, Shu-Huei

2014-12-01

Understanding the spatial variation of anisotropy in the upper mantle is important for characterizing the lithospheric deformation and mantle flow dynamics. In this study, we apply a full-wave approach to image the upper-mantle anisotropy in Southern California using 5954 SKS splitting data. Three-dimensional sensitivity kernels combined with a wavelet-based model parameterization are adopted in a multiscale inversion. Spatial resolution lengths are estimated based on a statistical resolution matrix approach, showing a finest resolution length of ~25 km in regions with densely distributed stations. The anisotropic model displays structural fabric in relation to surface geologic features such as the Salton Trough, the Transverse Ranges, and the San Andreas Fault. The depth variation of anisotropy does not suggest a lithosphere-asthenosphere decoupling. At long wavelengths, the fast directions of anisotropy are aligned with the absolute plate motion inside the Pacific and North American plates.

TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics

PubMed Central

Röst, Hannes L.; Liu, Yansheng; D’Agostino, Giuseppe; Zanella, Matteo; Navarro, Pedro; Rosenberger, George; Collins, Ben C.; Gillet, Ludovic; Testa, Giuseppe; Malmström, Lars; Aebersold, Ruedi

2016-01-01

Large scale, quantitative proteomic studies have become essential for the analysis of clinical cohorts, large perturbation experiments and systems biology studies. While next-generation mass spectrometric techniques such as SWATH-MS have substantially increased throughput and reproducibility, ensuring consistent quantification of thousands of peptide analytes across multiple LC-MS/MS runs remains a challenging and laborious manual process. To produce highly consistent and quantitatively accurate proteomics data matrices in an automated fashion, we have developed the TRIC software which utilizes fragment ion data to perform cross-run alignment, consistent peak-picking and quantification for high throughput targeted proteomics. TRIC uses a graph-based alignment strategy based on non-linear retention time correction to integrate peak elution information from all LC-MS/MS runs acquired in a study. When compared to state-of-the-art SWATH-MS data analysis, the algorithm was able to reduce the identification error by more than 3-fold at constant recall, while correcting for highly non-linear chromatographic effects. On a pulsed-SILAC experiment performed on human induced pluripotent stem (iPS) cells, TRIC was able to automatically align and quantify thousands of light and heavy isotopic peak groups and substantially increased the quantitative completeness and biological information in the data, providing insights into protein dynamics of iPS cells. Overall, this study demonstrates the importance of consistent quantification in highly challenging experimental setups, and proposes an algorithm to automate this task, constituting the last missing piece in a pipeline for automated analysis of massively parallel targeted proteomics datasets. PMID:27479329

Vector coding of wavelet-transformed images

NASA Astrophysics Data System (ADS)

Zhou, Jun; Zhi, Cheng; Zhou, Yuanhua

1998-09-01

Wavelet, as a brand new tool in signal processing, has got broad recognition. Using wavelet transform, we can get octave divided frequency band with specific orientation which combines well with the properties of Human Visual System. In this paper, we discuss the classified vector quantization method for multiresolution represented image.

Fabric wrinkle characterization and classification using modified wavelet coefficients and optimized support-vector-machine classifier

USDA-ARS?s Scientific Manuscript database

This paper presents a novel wrinkle evaluation method that uses modified wavelet coefficients and an optimized support-vector-machine (SVM) classification scheme to characterize and classify wrinkle appearance of fabric. Fabric images were decomposed with the wavelet transform (WT), and five parame...

Measurement of entanglement entropy in the two-dimensional Potts model using wavelet analysis.

PubMed

Tomita, Yusuke

2018-05-01

A method is introduced to measure the entanglement entropy using a wavelet analysis. Using this method, the two-dimensional Haar wavelet transform of a configuration of Fortuin-Kasteleyn (FK) clusters is performed. The configuration represents a direct snapshot of spin-spin correlations since spin degrees of freedom are traced out in FK representation. A snapshot of FK clusters loses image information at each coarse-graining process by the wavelet transform. It is shown that the loss of image information measures the entanglement entropy in the Potts model.

On the Daubechies-based wavelet differentiation matrix

NASA Technical Reports Server (NTRS)

Jameson, Leland

1993-01-01

The differentiation matrix for a Daubechies-based wavelet basis is constructed and superconvergence is proven. That is, it will be proven that under the assumption of periodic boundary conditions that the differentiation matrix is accurate of order 2M, even though the approximation subspace can represent exactly only polynomials up to degree M-1, where M is the number of vanishing moments of the associated wavelet. It is illustrated that Daubechies-based wavelet methods are equivalent to finite difference methods with grid refinement in regions of the domain where small-scale structure is present.

EEG Artifact Removal Using a Wavelet Neural Network

NASA Technical Reports Server (NTRS)

Nguyen, Hoang-Anh T.; Musson, John; Li, Jiang; McKenzie, Frederick; Zhang, Guangfan; Xu, Roger; Richey, Carl; Schnell, Tom

2011-01-01

!n this paper we developed a wavelet neural network. (WNN) algorithm for Electroencephalogram (EEG) artifact removal without electrooculographic (EOG) recordings. The algorithm combines the universal approximation characteristics of neural network and the time/frequency property of wavelet. We. compared the WNN algorithm with .the ICA technique ,and a wavelet thresholding method, which was realized by using the Stein's unbiased risk estimate (SURE) with an adaptive gradient-based optimal threshold. Experimental results on a driving test data set show that WNN can remove EEG artifacts effectively without diminishing useful EEG information even for very noisy data.

An efficient computer based wavelets approximation method to solve Fuzzy boundary value differential equations

NASA Astrophysics Data System (ADS)

Alam Khan, Najeeb; Razzaq, Oyoon Abdul

2016-03-01

In the present work a wavelets approximation method is employed to solve fuzzy boundary value differential equations (FBVDEs). Essentially, a truncated Legendre wavelets series together with the Legendre wavelets operational matrix of derivative are utilized to convert FB- VDE into a simple computational problem by reducing it into a system of fuzzy algebraic linear equations. The capability of scheme is investigated on second order FB- VDE considered under generalized H-differentiability. Solutions are represented graphically showing competency and accuracy of this method.

Periodized Daubechies wavelets

DOE Office of Scientific and Technical Information (OSTI.GOV)

Restrepo, J.M.; Leaf, G.K.; Schlossnagle, G.

1996-03-01

The properties of periodized Daubechies wavelets on [0,1] are detailed and counterparts which form a basis for L{sup 2}(R). Numerical examples illustrate the analytical estimates for convergence and demonstrated by comparison with Fourier spectral methods the superiority of wavelet projection methods for approximations. The analytical solution to inner products of periodized wavelets and their derivatives, which are known as connection coefficients, is presented, and their use ius illustrated in the approximation of two commonly used differential operators. The periodization of the connection coefficients in Galerkin schemes is presented in detail.

Interactions between Uterine EMG at Different Sites Investigated Using Wavelet Analysis: Comparison of Pregnancy and Labor Contractions

NASA Astrophysics Data System (ADS)

Hassan, Mahmoud; Terrien, Jérémy; Karlsson, Brynjar; Marque, Catherine

2010-12-01

This paper describes the use of the Morlet wavelet transform to investigate the difference in the time-frequency plane between uterine EMG signals recorded simultaneously on two different sites on women's abdomen, both during pregnancy and in labor. The methods used are wavelet transform, cross wavelet transform, phase/amplitude correlation, and phase synchronization. We computed the linear relationship and phase synchronization between uterine signals measured during the same contractions at two different sites on data obtained from women during pregnancy and labor. The results show that the Morlet wavelet transform can successfully analyze and quantify the relationship between uterine electrical activities at different sites and could be employed to investigate the evolution of uterine contraction from pregnancy to labor.

Directional dual-tree rational-dilation complex wavelet transform.

PubMed

Serbes, Gorkem; Gulcur, Halil Ozcan; Aydin, Nizamettin

2014-01-01

Dyadic discrete wavelet transform (DWT) has been used successfully in processing signals having non-oscillatory transient behaviour. However, due to the low Q-factor property of their wavelet atoms, the dyadic DWT is less effective in processing oscillatory signals such as embolic signals (ESs). ESs are extracted from quadrature Doppler signals, which are the output of Doppler ultrasound systems. In order to process ESs, firstly, a pre-processing operation known as phase filtering for obtaining directional signals from quadrature Doppler signals must be employed. Only then, wavelet based methods can be applied to these directional signals for further analysis. In this study, a directional dual-tree rational-dilation complex wavelet transform, which can be applied directly to quadrature signals and has the ability of extracting directional information during analysis, is introduced.

Performance of the Wavelet Decomposition on Massively Parallel Architectures

NASA Technical Reports Server (NTRS)

El-Ghazawi, Tarek A.; LeMoigne, Jacqueline; Zukor, Dorothy (Technical Monitor)

2001-01-01

Traditionally, Fourier Transforms have been utilized for performing signal analysis and representation. But although it is straightforward to reconstruct a signal from its Fourier transform, no local description of the signal is included in its Fourier representation. To alleviate this problem, Windowed Fourier transforms and then wavelet transforms have been introduced, and it has been proven that wavelets give a better localization than traditional Fourier transforms, as well as a better division of the time- or space-frequency plane than Windowed Fourier transforms. Because of these properties and after the development of several fast algorithms for computing the wavelet representation of any signal, in particular the Multi-Resolution Analysis (MRA) developed by Mallat, wavelet transforms have increasingly been applied to signal analysis problems, especially real-life problems, in which speed is critical. In this paper we present and compare efficient wavelet decomposition algorithms on different parallel architectures. We report and analyze experimental measurements, using NASA remotely sensed images. Results show that our algorithms achieve significant performance gains on current high performance parallel systems, and meet scientific applications and multimedia requirements. The extensive performance measurements collected over a number of high-performance computer systems have revealed important architectural characteristics of these systems, in relation to the processing demands of the wavelet decomposition of digital images.

A de-noising method using the improved wavelet threshold function based on noise variance estimation

NASA Astrophysics Data System (ADS)

Liu, Hui; Wang, Weida; Xiang, Changle; Han, Lijin; Nie, Haizhao

2018-01-01

The precise and efficient noise variance estimation is very important for the processing of all kinds of signals while using the wavelet transform to analyze signals and extract signal features. In view of the problem that the accuracy of traditional noise variance estimation is greatly affected by the fluctuation of noise values, this study puts forward the strategy of using the two-state Gaussian mixture model to classify the high-frequency wavelet coefficients in the minimum scale, which takes both the efficiency and accuracy into account. According to the noise variance estimation, a novel improved wavelet threshold function is proposed by combining the advantages of hard and soft threshold functions, and on the basis of the noise variance estimation algorithm and the improved wavelet threshold function, the research puts forth a novel wavelet threshold de-noising method. The method is tested and validated using random signals and bench test data of an electro-mechanical transmission system. The test results indicate that the wavelet threshold de-noising method based on the noise variance estimation shows preferable performance in processing the testing signals of the electro-mechanical transmission system: it can effectively eliminate the interference of transient signals including voltage, current, and oil pressure and maintain the dynamic characteristics of the signals favorably.

Wavelet-space correlation imaging for high-speed MRI without motion monitoring or data segmentation.

PubMed

Li, Yu; Wang, Hui; Tkach, Jean; Roach, David; Woods, Jason; Dumoulin, Charles

2015-12-01

This study aims to (i) develop a new high-speed MRI approach by implementing correlation imaging in wavelet-space, and (ii) demonstrate the ability of wavelet-space correlation imaging to image human anatomy with involuntary or physiological motion. Correlation imaging is a high-speed MRI framework in which image reconstruction relies on quantification of data correlation. The presented work integrates correlation imaging with a wavelet transform technique developed originally in the field of signal and image processing. This provides a new high-speed MRI approach to motion-free data collection without motion monitoring or data segmentation. The new approach, called "wavelet-space correlation imaging", is investigated in brain imaging with involuntary motion and chest imaging with free-breathing. Wavelet-space correlation imaging can exceed the speed limit of conventional parallel imaging methods. Using this approach with high acceleration factors (6 for brain MRI, 16 for cardiac MRI, and 8 for lung MRI), motion-free images can be generated in static brain MRI with involuntary motion and nonsegmented dynamic cardiac/lung MRI with free-breathing. Wavelet-space correlation imaging enables high-speed MRI in the presence of involuntary motion or physiological dynamics without motion monitoring or data segmentation. © 2014 Wiley Periodicals, Inc.

A high-performance seizure detection algorithm based on Discrete Wavelet Transform (DWT) and EEG

PubMed Central

Chen, Duo; Wan, Suiren; Xiang, Jing; Bao, Forrest Sheng

2017-01-01

In the past decade, Discrete Wavelet Transform (DWT), a powerful time-frequency tool, has been widely used in computer-aided signal analysis of epileptic electroencephalography (EEG), such as the detection of seizures. One of the important hurdles in the applications of DWT is the settings of DWT, which are chosen empirically or arbitrarily in previous works. The objective of this study aimed to develop a framework for automatically searching the optimal DWT settings to improve accuracy and to reduce computational cost of seizure detection. To address this, we developed a method to decompose EEG data into 7 commonly used wavelet families, to the maximum theoretical level of each mother wavelet. Wavelets and decomposition levels providing the highest accuracy in each wavelet family were then searched in an exhaustive selection of frequency bands, which showed optimal accuracy and low computational cost. The selection of frequency bands and features removed approximately 40% of redundancies. The developed algorithm achieved promising performance on two well-tested EEG datasets (accuracy >90% for both datasets). The experimental results of the developed method have demonstrated that the settings of DWT affect its performance on seizure detection substantially. Compared with existing seizure detection methods based on wavelet, the new approach is more accurate and transferable among datasets. PMID:28278203

Wavelet-space Correlation Imaging for High-speed MRI without Motion Monitoring or Data Segmentation

PubMed Central

Li, Yu; Wang, Hui; Tkach, Jean; Roach, David; Woods, Jason; Dumoulin, Charles

2014-01-01

Purpose This study aims to 1) develop a new high-speed MRI approach by implementing correlation imaging in wavelet-space, and 2) demonstrate the ability of wavelet-space correlation imaging to image human anatomy with involuntary or physiological motion. Methods Correlation imaging is a high-speed MRI framework in which image reconstruction relies on quantification of data correlation. The presented work integrates correlation imaging with a wavelet transform technique developed originally in the field of signal and image processing. This provides a new high-speed MRI approach to motion-free data collection without motion monitoring or data segmentation. The new approach, called “wavelet-space correlation imaging”, is investigated in brain imaging with involuntary motion and chest imaging with free-breathing. Results Wavelet-space correlation imaging can exceed the speed limit of conventional parallel imaging methods. Using this approach with high acceleration factors (6 for brain MRI, 16 for cardiac MRI and 8 for lung MRI), motion-free images can be generated in static brain MRI with involuntary motion and nonsegmented dynamic cardiac/lung MRI with free-breathing. Conclusion Wavelet-space correlation imaging enables high-speed MRI in the presence of involuntary motion or physiological dynamics without motion monitoring or data segmentation. PMID:25470230

Multidimensional, mapping-based complex wavelet transforms.

PubMed

Fernandes, Felix C A; van Spaendonck, Rutger L C; Burrus, C Sidney

2005-01-01

Although the discrete wavelet transform (DWT) is a powerful tool for signal and image processing, it has three serious disadvantages: shift sensitivity, poor directionality, and lack of phase information. To overcome these disadvantages, we introduce multidimensional, mapping-based, complex wavelet transforms that consist of a mapping onto a complex function space followed by a DWT of the complex mapping. Unlike other popular transforms that also mitigate DWT shortcomings, the decoupled implementation of our transforms has two important advantages. First, the controllable redundancy of the mapping stage offers a balance between degree of shift sensitivity and transform redundancy. This allows us to create a directional, nonredundant, complex wavelet transform with potential benefits for image coding systems. To the best of our knowledge, no other complex wavelet transform is simultaneously directional and nonredundant. The second advantage of our approach is the flexibility to use any DWT in the transform implementation. As an example, we exploit this flexibility to create the complex double-density DWT: a shift-insensitive, directional, complex wavelet transform with a low redundancy of (3M - 1)/(2M - 1) in M dimensions. No other transform achieves all these properties at a lower redundancy, to the best of our knowledge. By exploiting the advantages of our multidimensional, mapping-based complex wavelet transforms in seismic signal-processing applications, we have demonstrated state-of-the-art results.

Exact reconstruction with directional wavelets on the sphere

NASA Astrophysics Data System (ADS)

Wiaux, Y.; McEwen, J. D.; Vandergheynst, P.; Blanc, O.

2008-08-01

A new formalism is derived for the analysis and exact reconstruction of band-limited signals on the sphere with directional wavelets. It represents an evolution of a previously developed wavelet formalism developed by Antoine & Vandergheynst and Wiaux et al. The translations of the wavelets at any point on the sphere and their proper rotations are still defined through the continuous three-dimensional rotations. The dilations of the wavelets are directly defined in harmonic space through a new kernel dilation, which is a modification of an existing harmonic dilation. A family of factorized steerable functions with compact harmonic support which are suitable for this kernel dilation are first identified. A scale-discretized wavelet formalism is then derived, relying on this dilation. The discrete nature of the analysis scales allows the exact reconstruction of band-limited signals. A corresponding exact multi-resolution algorithm is finally described and an implementation is tested. The formalism is of interest notably for the denoising or the deconvolution of signals on the sphere with a sparse expansion in wavelets. In astrophysics, it finds a particular application for the identification of localized directional features in the cosmic microwave background data, such as the imprint of topological defects, in particular, cosmic strings, and for their reconstruction after separation from the other signal components.

Texture feature extraction based on wavelet transform and gray-level co-occurrence matrices applied to osteosarcoma diagnosis.

PubMed

Hu, Shan; Xu, Chao; Guan, Weiqiao; Tang, Yong; Liu, Yana

2014-01-01

Osteosarcoma is the most common malignant bone tumor among children and adolescents. In this study, image texture analysis was made to extract texture features from bone CR images to evaluate the recognition rate of osteosarcoma. To obtain the optimal set of features, Sym4 and Db4 wavelet transforms and gray-level co-occurrence matrices were applied to the image, with statistical methods being used to maximize the feature selection. To evaluate the performance of these methods, a support vector machine algorithm was used. The experimental results demonstrated that the Sym4 wavelet had a higher classification accuracy (93.44%) than the Db4 wavelet with respect to osteosarcoma occurrence in the epiphysis, whereas the Db4 wavelet had a higher classification accuracy (96.25%) for osteosarcoma occurrence in the diaphysis. Results including accuracy, sensitivity, specificity and ROC curves obtained using the wavelets were all higher than those obtained using the features derived from the GLCM method. It is concluded that, a set of texture features can be extracted from the wavelets and used in computer-aided osteosarcoma diagnosis systems. In addition, this study also confirms that multi-resolution analysis is a useful tool for texture feature extraction during bone CR image processing.

Synthesis of wavelet envelope in 2-D random media having power-law spectra: comparison with FD simulations

NASA Astrophysics Data System (ADS)

Sato, Haruo; Fehler, Michael C.

2016-10-01

The envelope broadening and the peak delay of the S-wavelet of a small earthquake with increasing travel distance are results of scattering by random velocity inhomogeneities in the earth medium. As a simple mathematical model, Sato proposed a new stochastic synthesis of the scalar wavelet envelope in 3-D von Kármán type random media when the centre wavenumber of the wavelet is in the power-law spectral range of the random velocity fluctuation. The essential idea is to split the random medium spectrum into two components using the centre wavenumber as a reference: the long-scale (low-wavenumber spectral) component produces the peak delay and the envelope broadening by multiple scattering around the forward direction; the short-scale (high-wavenumber spectral) component attenuates wave amplitude by wide angle scattering. The former is calculated by the Markov approximation based on the parabolic approximation and the latter is calculated by the Born approximation. Here, we extend the theory for the envelope synthesis of a wavelet in 2-D random media, which makes it easy to compare with finite difference (FD) simulation results. The synthetic wavelet envelope is analytically written by using the random medium parameters in the angular frequency domain. For the case that the power spectral density function of the random velocity fluctuation has a steep roll-off at large wavenumbers, the envelope broadening is small and frequency independent, and scattering attenuation is weak. For the case of a small roll-off, however, the envelope broadening is large and increases with frequency, and the scattering attenuation is strong and increases with frequency. As a preliminary study, we compare synthetic wavelet envelopes with the average of FD simulation wavelet envelopes in 50 synthesized random media, which are characterized by the RMS fractional velocity fluctuation ε = 0.05, correlation scale a = 5 km and the background wave velocity V0 = 4 km s-1. We use the radiation of a 2 Hz Ricker wavelet from a point source. For all the cases of von Kármán order κ = 0.1, 0.5 and 1, we find the synthetic wavelet envelopes are a good match to the characteristics of FD simulation wavelet envelopes in a time window starting from the onset through the maximum peak to the time when the amplitude decreases to half the peak amplitude.

Identification of family-specific residue packing motifs and their use for structure-based protein function prediction: I. Method development.

PubMed

Bandyopadhyay, Deepak; Huan, Jun; Prins, Jan; Snoeyink, Jack; Wang, Wei; Tropsha, Alexander

2009-11-01

Protein function prediction is one of the central problems in computational biology. We present a novel automated protein structure-based function prediction method using libraries of local residue packing patterns that are common to most proteins in a known functional family. Critical to this approach is the representation of a protein structure as a graph where residue vertices (residue name used as a vertex label) are connected by geometrical proximity edges. The approach employs two steps. First, it uses a fast subgraph mining algorithm to find all occurrences of family-specific labeled subgraphs for all well characterized protein structural and functional families. Second, it queries a new structure for occurrences of a set of motifs characteristic of a known family, using a graph index to speed up Ullman's subgraph isomorphism algorithm. The confidence of function inference from structure depends on the number of family-specific motifs found in the query structure compared with their distribution in a large non-redundant database of proteins. This method can assign a new structure to a specific functional family in cases where sequence alignments, sequence patterns, structural superposition and active site templates fail to provide accurate annotation.

Sparsity guided empirical wavelet transform for fault diagnosis of rolling element bearings

NASA Astrophysics Data System (ADS)

Wang, Dong; Zhao, Yang; Yi, Cai; Tsui, Kwok-Leung; Lin, Jianhui

2018-02-01

Rolling element bearings are widely used in various industrial machines, such as electric motors, generators, pumps, gearboxes, railway axles, turbines, and helicopter transmissions. Fault diagnosis of rolling element bearings is beneficial to preventing any unexpected accident and reducing economic loss. In the past years, many bearing fault detection methods have been developed. Recently, a new adaptive signal processing method called empirical wavelet transform attracts much attention from readers and engineers and its applications to bearing fault diagnosis have been reported. The main problem of empirical wavelet transform is that Fourier segments required in empirical wavelet transform are strongly dependent on the local maxima of the amplitudes of the Fourier spectrum of a signal, which connotes that Fourier segments are not always reliable and effective if the Fourier spectrum of the signal is complicated and overwhelmed by heavy noises and other strong vibration components. In this paper, sparsity guided empirical wavelet transform is proposed to automatically establish Fourier segments required in empirical wavelet transform for fault diagnosis of rolling element bearings. Industrial bearing fault signals caused by single and multiple railway axle bearing defects are used to verify the effectiveness of the proposed sparsity guided empirical wavelet transform. Results show that the proposed method can automatically discover Fourier segments required in empirical wavelet transform and reveal single and multiple railway axle bearing defects. Besides, some comparisons with three popular signal processing methods including ensemble empirical mode decomposition, the fast kurtogram and the fast spectral correlation are conducted to highlight the superiority of the proposed method.

eHive: An Artificial Intelligence workflow system for genomic analysis

PubMed Central

2010-01-01

Background The Ensembl project produces updates to its comparative genomics resources with each of its several releases per year. During each release cycle approximately two weeks are allocated to generate all the genomic alignments and the protein homology predictions. The number of calculations required for this task grows approximately quadratically with the number of species. We currently support 50 species in Ensembl and we expect the number to continue to grow in the future. Results We present eHive, a new fault tolerant distributed processing system initially designed to support comparative genomic analysis, based on blackboard systems, network distributed autonomous agents, dataflow graphs and block-branch diagrams. In the eHive system a MySQL database serves as the central blackboard and the autonomous agent, a Perl script, queries the system and runs jobs as required. The system allows us to define dataflow and branching rules to suit all our production pipelines. We describe the implementation of three pipelines: (1) pairwise whole genome alignments, (2) multiple whole genome alignments and (3) gene trees with protein homology inference. Finally, we show the efficiency of the system in real case scenarios. Conclusions eHive allows us to produce computationally demanding results in a reliable and efficient way with minimal supervision and high throughput. Further documentation is available at: http://www.ensembl.org/info/docs/eHive/. PMID:20459813

Visualizing bacterial tRNA identity determinants and antideterminants using function logos and inverse function logos

PubMed Central

Freyhult, Eva; Moulton, Vincent; Ardell, David H.

2006-01-01

Sequence logos are stacked bar graphs that generalize the notion of consensus sequence. They employ entropy statistics very effectively to display variation in a structural alignment of sequences of a common function, while emphasizing its over-represented features. Yet sequence logos cannot display features that distinguish functional subclasses within a structurally related superfamily nor do they display under-represented features. We introduce two extensions to address these needs: function logos and inverse logos. Function logos display subfunctions that are over-represented among sequences carrying a specific feature. Inverse logos generalize both sequence logos and function logos by displaying under-represented, rather than over-represented, features or functions in structural alignments. To make inverse logos, a compositional inverse is applied to the feature or function frequency distributions before logo construction, where a compositional inverse is a mathematical transform that makes common features or functions rare and vice versa. We applied these methods to a database of structurally aligned bacterial tDNAs to create highly condensed, birds-eye views of potentially all so-called identity determinants and antideterminants that confer specific amino acid charging or initiator function on tRNAs in bacteria. We recovered both known and a few potentially novel identity elements. Function logos and inverse logos are useful tools for exploratory bioinformatic analysis of structure–function relationships in sequence families and superfamilies. PMID:16473848

Wavelet based de-noising of breath air absorption spectra profiles for improved classification by principal component analysis

NASA Astrophysics Data System (ADS)

Kistenev, Yu. V.; Shapovalov, A. V.; Borisov, A. V.; Vrazhnov, D. A.; Nikolaev, V. V.; Nikiforova, O. Yu.

2015-11-01

The comparison results of different mother wavelets used for de-noising of model and experimental data which were presented by profiles of absorption spectra of exhaled air are presented. The impact of wavelets de-noising on classification quality made by principal component analysis are also discussed.

Wavelet Analyses and Applications

ERIC Educational Resources Information Center

Bordeianu, Cristian C.; Landau, Rubin H.; Paez, Manuel J.

2009-01-01

It is shown how a modern extension of Fourier analysis known as wavelet analysis is applied to signals containing multiscale information. First, a continuous wavelet transform is used to analyse the spectrum of a nonstationary signal (one whose form changes in time). The spectral analysis of such a signal gives the strength of the signal in each…

Multiadaptive Bionic Wavelet Transform: Application to ECG Denoising and Baseline Wandering Reduction

NASA Astrophysics Data System (ADS)

Sayadi, Omid; Shamsollahi, Mohammad B.

2007-12-01

We present a new modified wavelet transform, called the multiadaptive bionic wavelet transform (MABWT), that can be applied to ECG signals in order to remove noise from them under a wide range of variations for noise. By using the definition of bionic wavelet transform and adaptively determining both the center frequency of each scale together with the[InlineEquation not available: see fulltext.]-function, the problem of desired signal decomposition is solved. Applying a new proposed thresholding rule works successfully in denoising the ECG. Moreover by using the multiadaptation scheme, lowpass noisy interference effects on the baseline of ECG will be removed as a direct task. The method was extensively clinically tested with real and simulated ECG signals which showed high performance of noise reduction, comparable to those of wavelet transform (WT). Quantitative evaluation of the proposed algorithm shows that the average SNR improvement of MABWT is 1.82 dB more than the WT-based results, for the best case. Also the procedure has largely proved advantageous over wavelet-based methods for baseline wandering cancellation, including both DC components and baseline drifts.

Wavelet methodology to improve single unit isolation in primary motor cortex cells.

PubMed

Ortiz-Rosario, Alexis; Adeli, Hojjat; Buford, John A

2015-05-15

The proper isolation of action potentials recorded extracellularly from neural tissue is an active area of research in the fields of neuroscience and biomedical signal processing. This paper presents an isolation methodology for neural recordings using the wavelet transform (WT), a statistical thresholding scheme, and the principal component analysis (PCA) algorithm. The effectiveness of five different mother wavelets was investigated: biorthogonal, Daubachies, discrete Meyer, symmetric, and Coifman; along with three different wavelet coefficient thresholding schemes: fixed form threshold, Stein's unbiased estimate of risk, and minimax; and two different thresholding rules: soft and hard thresholding. The signal quality was evaluated using three different statistical measures: mean-squared error, root-mean squared, and signal to noise ratio. The clustering quality was evaluated using two different statistical measures: isolation distance, and L-ratio. This research shows that the selection of the mother wavelet has a strong influence on the clustering and isolation of single unit neural activity, with the Daubachies 4 wavelet and minimax thresholding scheme performing the best. Copyright © 2015. Published by Elsevier B.V.

MRS3D: 3D Spherical Wavelet Transform on the Sphere

NASA Astrophysics Data System (ADS)

Lanusse, F.; Rassat, A.; Starck, J.-L.

2011-12-01

Future cosmological surveys will provide 3D large scale structure maps with large sky coverage, for which a 3D Spherical Fourier-Bessel (SFB) analysis is natural. Wavelets are particularly well-suited to the analysis and denoising of cosmological data, but a spherical 3D isotropic wavelet transform does not currently exist to analyse spherical 3D data. We present a new fast Discrete Spherical Fourier-Bessel Transform (DSFBT) based on both a discrete Bessel Transform and the HEALPIX angular pixelisation scheme. We tested the 3D wavelet transform and as a toy-application, applied a denoising algorithm in wavelet space to the Virgo large box cosmological simulations and found we can successfully remove noise without much loss to the large scale structure. The new spherical 3D isotropic wavelet transform, called MRS3D, is ideally suited to analysing and denoising future 3D spherical cosmological surveys; it uses a novel discrete spherical Fourier-Bessel Transform. MRS3D is based on two packages, IDL and Healpix and can be used only if these two packages have been installed.

Multiscale Support Vector Learning With Projection Operator Wavelet Kernel for Nonlinear Dynamical System Identification.

PubMed

Lu, Zhao; Sun, Jing; Butts, Kenneth

2016-02-03

A giant leap has been made in the past couple of decades with the introduction of kernel-based learning as a mainstay for designing effective nonlinear computational learning algorithms. In view of the geometric interpretation of conditional expectation and the ubiquity of multiscale characteristics in highly complex nonlinear dynamic systems [1]-[3], this paper presents a new orthogonal projection operator wavelet kernel, aiming at developing an efficient computational learning approach for nonlinear dynamical system identification. In the framework of multiresolution analysis, the proposed projection operator wavelet kernel can fulfill the multiscale, multidimensional learning to estimate complex dependencies. The special advantage of the projection operator wavelet kernel developed in this paper lies in the fact that it has a closed-form expression, which greatly facilitates its application in kernel learning. To the best of our knowledge, it is the first closed-form orthogonal projection wavelet kernel reported in the literature. It provides a link between grid-based wavelets and mesh-free kernel-based methods. Simulation studies for identifying the parallel models of two benchmark nonlinear dynamical systems confirm its superiority in model accuracy and sparsity.

Segmentation of dermoscopy images using wavelet networks.

PubMed

Sadri, Amir Reza; Zekri, Maryam; Sadri, Saeed; Gheissari, Niloofar; Mokhtari, Mojgan; Kolahdouzan, Farzaneh

2013-04-01

This paper introduces a new approach for the segmentation of skin lesions in dermoscopic images based on wavelet network (WN). The WN presented here is a member of fixed-grid WNs that is formed with no need of training. In this WN, after formation of wavelet lattice, determining shift and scale parameters of wavelets with two screening stage and selecting effective wavelets, orthogonal least squares algorithm is used to calculate the network weights and to optimize the network structure. The existence of two stages of screening increases globality of the wavelet lattice and provides a better estimation of the function especially for larger scales. R, G, and B values of a dermoscopy image are considered as the network inputs and the network structure formation. Then, the image is segmented and the skin lesions exact boundary is determined accordingly. The segmentation algorithm were applied to 30 dermoscopic images and evaluated with 11 different metrics, using the segmentation result obtained by a skilled pathologist as the ground truth. Experimental results show that our method acts more effectively in comparison with some modern techniques that have been successfully used in many medical imaging problems.

Wavelet based detection of manatee vocalizations

NASA Astrophysics Data System (ADS)

Gur, Berke M.; Niezrecki, Christopher

2005-04-01

The West Indian manatee (Trichechus manatus latirostris) has become endangered partly because of watercraft collisions in Florida's coastal waterways. Several boater warning systems, based upon manatee vocalizations, have been proposed to reduce the number of collisions. Three detection methods based on the Fourier transform (threshold, harmonic content and autocorrelation methods) were previously suggested and tested. In the last decade, the wavelet transform has emerged as an alternative to the Fourier transform and has been successfully applied in various fields of science and engineering including the acoustic detection of dolphin vocalizations. As of yet, no prior research has been conducted in analyzing manatee vocalizations using the wavelet transform. Within this study, the wavelet transform is used as an alternative to the Fourier transform in detecting manatee vocalizations. The wavelet coefficients are analyzed and tested against a specified criterion to determine the existence of a manatee call. The performance of the method presented is tested on the same data previously used in the prior studies, and the results are compared. Preliminary results indicate that using the wavelet transform as a signal processing technique to detect manatee vocalizations shows great promise.

Detecting Buried Archaeological Remains by the Use of Geophysical Data Processing with 'Diffusion Maps' Methodology

NASA Astrophysics Data System (ADS)

Eppelbaum, Lev

2015-04-01

Geophysical methods are prompt, non-invasive and low-cost tool for quantitative delineation of buried archaeological targets. However, taking into account the complexity of geological-archaeological media, some unfavourable environments and known ambiguity of geophysical data analysis, a single geophysical method examination might be insufficient (Khesin and Eppelbaum, 1997). Besides this, it is well-known that the majority of inverse-problem solutions in geophysics are ill-posed (e.g., Zhdanov, 2002), which means, according to Hadamard (1902), that the solution does not exist, or is not unique, or is not a continuous function of observed geophysical data (when small perturbations in the observations will cause arbitrary mistakes in the solution). This fact has a wide application for informational, probabilistic and wavelet methodologies in archaeological geophysics (Eppelbaum, 2014a). The goal of the modern geophysical data examination is to detect the geophysical signatures of buried targets at noisy areas via the analysis of some physical parameters with a minimal number of false alarms and miss-detections (Eppelbaum et al., 2011; Eppelbaum, 2014b). The proposed wavelet approach to recognition of archaeological targets (AT) by the examination of geophysical method integration consists of advanced processing of each geophysical method and nonconventional integration of different geophysical methods between themselves. The recently developed technique of diffusion clustering combined with the abovementioned wavelet methods was utilized to integrate the geophysical data and detect existing irregularities. The approach is based on the wavelet packet techniques applied as to the geophysical images (or graphs) versus coordinates. For such an analysis may be utilized practically all geophysical methods (magnetic, gravity, seismic, GPR, ERT, self-potential, etc.). On the first stage of the proposed investigation a few tens of typical physical-archaeological models (PAM) (e.g., Eppelbaum et al., 2010; Eppelbaum, 2011) of the targets under study for the concrete area (region) are developed. These PAM are composed on the basis of the known archaeological and geological data, results of previous archaeogeophysical investigations and 3D modeling of geophysical data. It should be underlined that the PAMs must differ (by depth, size, shape and physical properties of AT as well as peculiarities of the host archaeological-geological media). The PAMs must include also noise components of different orders (corresponding to the archaeogeophysical conditions of the area under study). The same models are computed and without the AT. Introducing complex PAMs (for example, situated in the vicinity of electric power lines, some objects of infrastructure, etc. (Eppelbaum et al., 2001)) will reflect some real class of AT occurring in such unfavorable for geophysical searching conditions. Anomalous effects from such complex PAMs will significantly disturb the geophysical anomalies from AT and impede the wavelet methodology employment. At the same time, the 'self-learning' procedure laid in this methodology will help further to recognize the AT even in the cases of unfavorable S/N ratio. Modern developments in the wavelet theory and data mining are utilized for the analysis of the integrated data. Wavelet approach is applied for derivation of enhanced (e.g., coherence portraits) and combined images of geophysical fields. The modern methodologies based on the matching pursuit with wavelet packet dictionaries enables to extract desired signals even from strongly noised data (Averbuch et al., 2014). Researchers usually met the problem of extraction of essential features from available data contaminated by a random noise and by a non-relevant background (Averbuch et al., 2014). If the essential structure of a signal consists of several sine waves then we may represent it via trigonometric basis (Fourier analysis). In this case one can compare the signal with a set of sinusoids and extract consistent ones. An indicator of presence a wave in a signal f(t) is the Fourier coefficient ∫ f(t) sinwt dt. Wavelet analysis provides a rich library of waveforms available and fast, computationally efficient procedures of representation of signals and of selection of relevant waveforms. The basic assumption justifying an application of wavelet analysis is that the essential structure of a signal analyzed consists of not a large number of various waveforms. The best way to reveal this structure is representation of the signal by a set of basic elements containing waveforms coherent to the signal. For structures of the signal coherent to the basis, large coefficients are attributed to a few basic waveforms, whereas we expect small coefficients for the noise and structures incoherent to all basic waveforms. Wavelets are a family of functions ranging from functions of arbitrary smoothness to fractal ones. Wavelet procedure involves two aspects. The first one is a decomposition, i.e. breaking up a signal to obtain the wavelet coefficients and the 2nd one is a reconstruction, which consists of a reassembling the signal from coefficients There are many modifications of the WA. Note, first of all, so-called Continuous WA in whichsignal f(t) is tested for presence of waveforms ψ(t-b) a. Here, a is scaling parameter (dilation), bdetermines location of the wavelet ψ(t-b) a in a signal f(t). The integral ( ) ∫ t-b (W ψf) (b,a) = f (t) ψ a dt is the Continuous Wavelet Transform.When parameters a,b in ψ( ) t-ab take some discrete values, we have the Discrete Wavelet Transform. A general scheme of the Wavelet Decomposition Tree is shown, for instance, in (Averbuch et al., 2014; Eppelbaum et al., 2014). The signal is compared with the testing signal on each scale. It is estimated wavelet coefficients which enable to reconstruct the 1st approximation of the signal and details. On the next level, wavelet transform is applied to the approximation. Then, we can present A1 as A2 + D2, etc. So, if S - Signal, A - Approximation, D - Details, then S = A1 + D1 = A2 + D2 + D1 = A3 + D3 + D2 + D1. Wavelet packet transform is applied to both low pass results (approximations) and high pass results (Details). For analyzing the geophysical data, we used a technique based on the algorithm to characterize a geophysical image by a limited number of parameters (Eppelbaum et al., 2012). This set of parameters serves as a signature of the image and is utilized for discrimination of images (a) containing AT from the images (b) non-containing AT (let will designate these images as N). The constructed algorithm consists of the following main phases: (a) collection of the database, (b) characterization of geophysical images, (c) and dimensionality reduction. Then, each image is characterized by the histogram of the coherency directions (Alperovich et al., 2013). As a result of the previous steps we obtain two sets: containing AT and N of the signatures vectors for geophysical images. The obtained 3D set of the data representatives can be used as a reference set for the classification of newly arriving geophysical data. The obtained data sets are reduced by embedding features vectors into the 3D Euclidean space using the so-called diffusion map. This map enables to reveal the internal structure of the datasets AT and N and to distinctly separate them. For this, a matrix of the diffusion distances for the combined feature matrix F = FN ∴ FC of size 60 x C is constructed (Coifman and Lafon, 2006; Averbuch et al., 2010). Then, each row of the matrices FN and FC is projected onto three first eigenvectors of the matrix D(F ). As a result, each data curve is represented by a 3D point in the Euclidean space formed by eigenvectors of D(F ). The Euclidean distances between these 3D points reflect the similarity of the data curves. The scattered projections of the data curves onto the diffusion eigenvectors will be composed. Finally we observe that as a result of the above operations we embedded the original data into 3-dimensional space where data related to the AT subsurface are well separated from the N data. This 3D set of the data representatives can be used as a reference set for the classification of newly arriving data. Geophysically it means a reliable division of the studied areas for the AT-containing and not containing (N) these objects. Testing this methodology for delineation of archaeological cavities by magnetic and gravity data analysis displayed an effectiveness of this approach. References Alperovich, L., Eppelbaum, L., Zheludev, V., Dumoulin, J., Soldovieri, F., Proto, M., Bavusi, M. and Loperte, A., 2013. A new combined wavelet methodology applied to GPR and ERT data in the Montagnole experiment (French Alps). Journal of Geophysics and Engineering, 10, No. 2, 025017, 1-17. Averbuch, A., Hochman, K., Rabin, N., Schclar, A. and Zheludev, V., 2010. A diffusion frame-work for detection of moving vehicles. Digital Signal Processing, 20, No.1, 111-122. Averbuch A.Z., Neittaanmäki, P., and Zheludev, V.A., 2014. Spline and Spline Wavelet Methods with Applications to Signal and Image Processing. Volume I: Periodic Splines. Springer. Coifman, R.R. and Lafon, S., 2006. Diffusion maps, Applied and Computational Harmonic Analysis. Special issue on Diffusion Maps and Wavelets, 21, No. 7, 5-30. Eppelbaum, L.V., 2011. Study of magnetic anomalies over archaeological targets in urban conditions. Physics and Chemistry of the Earth, 36, No. 16, 1318-1330. Eppelbaum, L.V., 2014a. Geophysical observations at archaeological sites: Estimating informational content. Archaeological Prospection, 21, No. 2, 25-38. Eppelbaum, L.V. 2014b. Four Color Theorem and Applied Geophysics. Applied Mathematics, 5, 358-366. Eppelbaum, L.V., Alperovich, L., Zheludev, V. and Pechersky, A., 2011. Application of informational and wavelet approaches for integrated processing of geophysical data in complex environments. Proceed. of the 2011 SAGEEP Conference, Charleston, South Carolina, USA, 24, 24-60. Eppelbaum, L.V., Khesin, B.E. and Itkis, S.E., 2001. Prompt magnetic investigations of archaeological remains in areas of infrastructure development: Israeli experience. Archaeological Prospection, 8, No.3, 163-185. Eppelbaum, L.V., Khesin, B.E. and Itkis, S.E., 2010. Archaeological geophysics in arid environments: Examples from Israel. Journal of Arid Environments, 74, No. 7, 849-860. Eppelbaum, L.V., Zheludev, V. and Averbuch, A., 2014. Diffusion maps as a powerful tool for integrated geophysical field analysis to detecting hidden karst terranes. Izv. Acad. Sci. Azerb. Rep., Ser.: Earth Sciences, No. 1-2, 36-46. Hadamard, J., 1902. Sur les problèmes aux dérivées partielles et leur signification physique. Princeton University Bulletin, 13, 49-52. Khesin, B.E. and Eppelbaum, L.V., 1997. The number of geophysical methods required for target classification: quantitative estimation. Geoinformatics, 8, No.1, 31-39. Zhdanov, M.S., 2002. Geophysical Inverse Theory and Regularization Problems. Methods in Geochemistry and Geophysics, Vol. 36. Elsevier, Amsterdam.

A Wavelet Neural Network Optimal Control Model for Traffic-Flow Prediction in Intelligent Transport Systems

NASA Astrophysics Data System (ADS)

Huang, Darong; Bai, Xing-Rong

Based on wavelet transform and neural network theory, a traffic-flow prediction model, which was used in optimal control of Intelligent Traffic system, is constructed. First of all, we have extracted the scale coefficient and wavelet coefficient from the online measured raw data of traffic flow via wavelet transform; Secondly, an Artificial Neural Network model of Traffic-flow Prediction was constructed and trained using the coefficient sequences as inputs and raw data as outputs; Simultaneous, we have designed the running principium of the optimal control system of traffic-flow Forecasting model, the network topological structure and the data transmitted model; Finally, a simulated example has shown that the technique is effectively and exactly. The theoretical results indicated that the wavelet neural network prediction model and algorithms have a broad prospect for practical application.

Effective implementation of wavelet Galerkin method

NASA Astrophysics Data System (ADS)

Finěk, Václav; Šimunková, Martina

2012-11-01

It was proved by W. Dahmen et al. that an adaptive wavelet scheme is asymptotically optimal for a wide class of elliptic equations. This scheme approximates the solution u by a linear combination of N wavelets and a benchmark for its performance is the best N-term approximation, which is obtained by retaining the N largest wavelet coefficients of the unknown solution. Moreover, the number of arithmetic operations needed to compute the approximate solution is proportional to N. The most time consuming part of this scheme is the approximate matrix-vector multiplication. In this contribution, we will introduce our implementation of wavelet Galerkin method for Poisson equation -Δu = f on hypercube with homogeneous Dirichlet boundary conditions. In our implementation, we identified nonzero elements of stiffness matrix corresponding to the above problem and we perform matrix-vector multiplication only with these nonzero elements.

Wavelet-based energy features for glaucomatous image classification.

PubMed

Dua, Sumeet; Acharya, U Rajendra; Chowriappa, Pradeep; Sree, S Vinitha

2012-01-01

Texture features within images are actively pursued for accurate and efficient glaucoma classification. Energy distribution over wavelet subbands is applied to find these important texture features. In this paper, we investigate the discriminatory potential of wavelet features obtained from the daubechies (db3), symlets (sym3), and biorthogonal (bio3.3, bio3.5, and bio3.7) wavelet filters. We propose a novel technique to extract energy signatures obtained using 2-D discrete wavelet transform, and subject these signatures to different feature ranking and feature selection strategies. We have gauged the effectiveness of the resultant ranked and selected subsets of features using a support vector machine, sequential minimal optimization, random forest, and naïve Bayes classification strategies. We observed an accuracy of around 93% using tenfold cross validations to demonstrate the effectiveness of these methods.

Improving ground-penetrating radar data in sedimentary rocks using deterministic deconvolution

USGS Publications Warehouse

Xia, J.; Franseen, E.K.; Miller, R.D.; Weis, T.V.; Byrnes, A.P.

2003-01-01

Resolution is key to confidently identifying unique geologic features using ground-penetrating radar (GPR) data. Source wavelet "ringing" (related to bandwidth) in a GPR section limits resolution because of wavelet interference, and can smear reflections in time and/or space. The resultant potential for misinterpretation limits the usefulness of GPR. Deconvolution offers the ability to compress the source wavelet and improve temporal resolution. Unlike statistical deconvolution, deterministic deconvolution is mathematically simple and stable while providing the highest possible resolution because it uses the source wavelet unique to the specific radar equipment. Source wavelets generated in, transmitted through and acquired from air allow successful application of deterministic approaches to wavelet suppression. We demonstrate the validity of using a source wavelet acquired in air as the operator for deterministic deconvolution in a field application using "400-MHz" antennas at a quarry site characterized by interbedded carbonates with shale partings. We collected GPR data on a bench adjacent to cleanly exposed quarry faces in which we placed conductive rods to provide conclusive groundtruth for this approach to deconvolution. The best deconvolution results, which are confirmed by the conductive rods for the 400-MHz antenna tests, were observed for wavelets acquired when the transmitter and receiver were separated by 0.3 m. Applying deterministic deconvolution to GPR data collected in sedimentary strata at our study site resulted in an improvement in resolution (50%) and improved spatial location (0.10-0.15 m) of geologic features compared to the same data processed without deterministic deconvolution. The effectiveness of deterministic deconvolution for increased resolution and spatial accuracy of specific geologic features is further demonstrated by comparing results of deconvolved data with nondeconvolved data acquired along a 30-m transect immediately adjacent to a fresh quarry face. The results at this site support using deterministic deconvolution, which incorporates the GPR instrument's unique source wavelet, as a standard part of routine GPR data processing. ?? 2003 Elsevier B.V. All rights reserved.

Riding the Right Wavelet: Detecting Fracture and Fault Orientation Scale Transitions Using Morlet Wavelets

NASA Astrophysics Data System (ADS)

Rizzo, R. E.; Healy, D.; Farrell, N. J.; Smith, M.

2016-12-01

The analysis of images through two-dimensional (2D) continuous wavelet transforms makes it possible to acquire local information at different scales of resolution. This characteristic allows us to use wavelet analysis to quantify anisotropic random fields such as networks of fractures. Previous studies [1] have used 2D anisotropic Mexican hat wavelets to analyse the organisation of fracture networks from cm- to km-scales. However, Antoine et al. [2] explained that this technique can have a relatively poor directional selectivity. This suggests the use of a wavelet whose transform is more sensitive to directions of linear features, i.e. 2D Morlet wavelets [3]. In this work, we use a fully-anisotropic Morlet wavelet as implemented by Neupauer & Powell [4], which is anisotropic in its real and imaginary parts and also in its magnitude. We demonstrate the validity of this analytical technique by application to both synthetic - generated according to known distributions of orientations and lengths - and experimentally produced fracture networks. We have analysed SEM Back Scattered Electron images of thin sections of Hopeman Sandstone (Scotland, UK) deformed under triaxial conditions. We find that the Morlet wavelet, compared to the Mexican hat, is more precise in detecting dominant orientations in fracture scale transition at every scale from intra-grain fractures (µm-scale) up to the faults cutting the whole thin section (cm-scale). Through this analysis we can determine the relationship between the initial orientation of tensile microcracks and the final geometry of the through-going shear fault, with total areal coverage of the analysed image. By comparing thin sections from experiments at different confining pressures, we can quantitatively explore the relationship between the observed geometry and the inferred mechanical processes. [1] Ouillon et al., Nonlinear Processes in Geophysics (1995) 2:158 - 177. [2] Antoine et al., Cambridge University Press (2008) 192-194. [3] Antoine et al., Signal Processing (1993) 31:241 - 272. [4] Neupauer & Powell, Computer & Geosciences (2005) 31:456 - 471.

Limit cycles in piecewise-affine gene network models with multiple interaction loops

NASA Astrophysics Data System (ADS)

Farcot, Etienne; Gouzé, Jean-Luc

2010-01-01

In this article, we consider piecewise affine differential equations modelling gene networks. We work with arbitrary decay rates, and under a local hypothesis expressed as an alignment condition of successive focal points. The interaction graph of the system may be rather complex (multiple intricate loops of any sign, multiple thresholds, etc.). Our main result is an alternative theorem showing that if a sequence of region is periodically visited by trajectories, then under our hypotheses, there exists either a unique stable periodic solution, or the origin attracts all trajectories in this sequence of regions. This result extends greatly our previous work on a single negative feedback loop. We give several examples and simulations illustrating different cases.

Option pricing from wavelet-filtered financial series

NASA Astrophysics Data System (ADS)

de Almeida, V. T. X.; Moriconi, L.

2012-10-01

We perform wavelet decomposition of high frequency financial time series into large and small time scale components. Taking the FTSE100 index as a case study, and working with the Haar basis, it turns out that the small scale component defined by most (≃99.6%) of the wavelet coefficients can be neglected for the purpose of option premium evaluation. The relevance of the hugely compressed information provided by low-pass wavelet-filtering is related to the fact that the non-gaussian statistical structure of the original financial time series is essentially preserved for expiration times which are larger than just one trading day.

Variable mass pendulum behaviour processed by wavelet analysis

NASA Astrophysics Data System (ADS)

Caccamo, M. T.; Magazù, S.

2017-01-01

The present work highlights how, in order to characterize the motion of a variable mass pendulum, wavelet analysis can be an effective tool in furnishing information on the time evolution of the oscillation spectral content. In particular, the wavelet transform is applied to process the motion of a hung funnel that loses fine sand at an exponential rate; it is shown how, in contrast to the Fourier transform which furnishes only an average frequency value for the motion, the wavelet approach makes it possible to perform a joint time-frequency analysis. The work is addressed at undergraduate and graduate students.

Identification Method of Mud Shale Fractures Base on Wavelet Transform

NASA Astrophysics Data System (ADS)

Xia, Weixu; Lai, Fuqiang; Luo, Han

2018-01-01

In recent years, inspired by seismic analysis technology, a new method for analysing mud shale fractures oil and gas reservoirs by logging properties has emerged. By extracting the high frequency attribute of the wavelet transform in the logging attribute, the formation information hidden in the logging signal is extracted, identified the fractures that are not recognized by conventional logging and in the identified fracture segment to show the “cycle jump”, “high value”, “spike” and other response effect is more obvious. Finally formed a complete wavelet denoising method and wavelet high frequency identification fracture method.

Privacy Preserving Technique for Euclidean Distance Based Mining Algorithms Using a Wavelet Related Transform

NASA Astrophysics Data System (ADS)

Kadampur, Mohammad Ali; D. v. L. N., Somayajulu

Privacy preserving data mining is an art of knowledge discovery without revealing the sensitive data of the data set. In this paper a data transformation technique using wavelets is presented for privacy preserving data mining. Wavelets use well known energy compaction approach during data transformation and only the high energy coefficients are published to the public domain instead of the actual data proper. It is found that the transformed data preserves the Eucleadian distances and the method can be used in privacy preserving clustering. Wavelets offer the inherent improved time complexity.

Wavelet analysis and scaling properties of time series

NASA Astrophysics Data System (ADS)

Manimaran, P.; Panigrahi, Prasanta K.; Parikh, Jitendra C.

2005-10-01

We propose a wavelet based method for the characterization of the scaling behavior of nonstationary time series. It makes use of the built-in ability of the wavelets for capturing the trends in a data set, in variable window sizes. Discrete wavelets from the Daubechies family are used to illustrate the efficacy of this procedure. After studying binomial multifractal time series with the present and earlier approaches of detrending for comparison, we analyze the time series of averaged spin density in the 2D Ising model at the critical temperature, along with several experimental data sets possessing multifractal behavior.

Wavelet Applications for Flight Flutter Testing

NASA Technical Reports Server (NTRS)

Lind, Rick; Brenner, Marty; Freudinger, Lawrence C.

1999-01-01

Wavelets present a method for signal processing that may be useful for analyzing responses of dynamical systems. This paper describes several wavelet-based tools that have been developed to improve the efficiency of flight flutter testing. One of the tools uses correlation filtering to identify properties of several modes throughout a flight test for envelope expansion. Another tool uses features in time-frequency representations of responses to characterize nonlinearities in the system dynamics. A third tool uses modulus and phase information from a wavelet transform to estimate modal parameters that can be used to update a linear model and reduce conservatism in robust stability margins.

Wavelet-based polarimetry analysis

NASA Astrophysics Data System (ADS)

Ezekiel, Soundararajan; Harrity, Kyle; Farag, Waleed; Alford, Mark; Ferris, David; Blasch, Erik

2014-06-01

Wavelet transformation has become a cutting edge and promising approach in the field of image and signal processing. A wavelet is a waveform of effectively limited duration that has an average value of zero. Wavelet analysis is done by breaking up the signal into shifted and scaled versions of the original signal. The key advantage of a wavelet is that it is capable of revealing smaller changes, trends, and breakdown points that are not revealed by other techniques such as Fourier analysis. The phenomenon of polarization has been studied for quite some time and is a very useful tool for target detection and tracking. Long Wave Infrared (LWIR) polarization is beneficial for detecting camouflaged objects and is a useful approach when identifying and distinguishing manmade objects from natural clutter. In addition, the Stokes Polarization Parameters, which are calculated from 0°, 45°, 90°, 135° right circular, and left circular intensity measurements, provide spatial orientations of target features and suppress natural features. In this paper, we propose a wavelet-based polarimetry analysis (WPA) method to analyze Long Wave Infrared Polarimetry Imagery to discriminate targets such as dismounts and vehicles from background clutter. These parameters can be used for image thresholding and segmentation. Experimental results show the wavelet-based polarimetry analysis is efficient and can be used in a wide range of applications such as change detection, shape extraction, target recognition, and feature-aided tracking.

Evidence of Large Fluctuations of Stock Return and Financial Crises from Turkey: Using Wavelet Coherency and Varma Modeling to Forecast Stock Return

NASA Astrophysics Data System (ADS)

Oygur, Tunc; Unal, Gazanfer

Shocks, jumps, booms and busts are typical large fluctuation markers which appear in crisis. Models and leading indicators vary according to crisis type in spite of the fact that there are a lot of different models and leading indicators in literature to determine structure of crisis. In this paper, we investigate structure of dynamic correlation of stock return, interest rate, exchange rate and trade balance differences in crisis periods in Turkey over the period between October 1990 and March 2015 by applying wavelet coherency methodologies to determine nature of crises. The time period includes the Turkeys currency and banking crises; US sub-prime mortgage crisis and the European sovereign debt crisis occurred in 1994, 2001, 2008 and 2009, respectively. Empirical results showed that stock return, interest rate, exchange rate and trade balance differences are significantly linked during the financial crises in Turkey. The cross wavelet power, the wavelet coherency, the multiple wavelet coherency and the quadruple wavelet coherency methodologies have been used to examine structure of dynamic correlation. Moreover, in consequence of quadruple and multiple wavelet coherence, strongly correlated large scales indicate linear behavior and, hence VARMA (vector autoregressive moving average) gives better fitting and forecasting performance. In addition, increasing the dimensions of the model for strongly correlated scales leads to more accurate results compared to scalar counterparts.

What drives high flow events in the Swiss Alps? Recent developments in wavelet spectral analysis and their application to hydrology

NASA Astrophysics Data System (ADS)

Schaefli, B.; Maraun, D.; Holschneider, M.

2007-12-01

Extreme hydrological events are often triggered by exceptional co-variations of the relevant hydrometeorological processes and in particular by exceptional co-oscillations at various temporal scales. Wavelet and cross wavelet spectral analysis offers promising time-scale resolved analysis methods to detect and analyze such exceptional co-oscillations. This paper presents the state-of-the-art methods of wavelet spectral analysis, discusses related subtleties, potential pitfalls and recently developed solutions to overcome them and shows how wavelet spectral analysis, if combined to a rigorous significance test, can lead to reliable new insights into hydrometeorological processes for real-world applications. The presented methods are applied to detect potentially flood triggering situations in a high Alpine catchment for which a recent re-estimation of design floods encountered significant problems simulating the observed high flows. For this case study, wavelet spectral analysis of precipitation, temperature and discharge offers a powerful tool to help detecting potentially flood producing meteorological situations and to distinguish between different types of floods with respect to the prevailing critical hydrometeorological conditions. This opens very new perspectives for the analysis of model performances focusing on the occurrence and non-occurrence of different types of high flow events. Based on the obtained results, the paper summarizes important recommendations for future applications of wavelet spectral analysis in hydrology.

Application of wavelet analysis for monitoring the hydrologic effects of dam operation: Glen canyon dam and the Colorado River at lees ferry, Arizona

USGS Publications Warehouse

White, M.A.; Schmidt, J.C.; Topping, D.J.

2005-01-01

Wavelet analysis is a powerful tool with which to analyse the hydrologic effects of dam construction and operation on river systems. Using continuous records of instantaneous discharge from the Lees Ferry gauging station and records of daily mean discharge from upstream tributaries, we conducted wavelet analyses of the hydrologic structure of the Colorado River in Grand Canyon. The wavelet power spectrum (WPS) of daily mean discharge provided a highly compressed and integrative picture of the post-dam elimination of pronounced annual and sub-annual flow features. The WPS of the continuous record showed the influence of diurnal and weekly power generation cycles, shifts in discharge management, and the 1996 experimental flood in the post-dam period. Normalization of the WPS by local wavelet spectra revealed the fine structure of modulation in discharge scale and amplitude and provides an extremely efficient tool with which to assess the relationships among hydrologic cycles and ecological and geomorphic systems. We extended our analysis to sections of the Snake River and showed how wavelet analysis can be used as a data mining technique. The wavelet approach is an especially promising tool with which to assess dam operation in less well-studied regions and to evaluate management attempts to reconstruct desired flow characteristics. Copyright ?? 2005 John Wiley & Sons, Ltd.

Reversible wavelet filter banks with side informationless spatially adaptive low-pass filters

NASA Astrophysics Data System (ADS)

Abhayaratne, Charith

2011-07-01

Wavelet transforms that have an adaptive low-pass filter are useful in applications that require the signal singularities, sharp transitions, and image edges to be left intact in the low-pass signal. In scalable image coding, the spatial resolution scalability is achieved by reconstructing the low-pass signal subband, which corresponds to the desired resolution level, and discarding other high-frequency wavelet subbands. In such applications, it is vital to have low-pass subbands that are not affected by smoothing artifacts associated with low-pass filtering. We present the mathematical framework for achieving 1-D wavelet transforms that have a spatially adaptive low-pass filter (SALP) using the prediction-first lifting scheme. The adaptivity decisions are computed using the wavelet coefficients, and no bookkeeping is required for the perfect reconstruction. Then, 2-D wavelet transforms that have a spatially adaptive low-pass filter are designed by extending the 1-D SALP framework. Because the 2-D polyphase decompositions are used in this case, the 2-D adaptivity decisions are made nonseparable as opposed to the separable 2-D realization using 1-D transforms. We present examples using the 2-D 5/3 wavelet transform and their lossless image coding and scalable decoding performances in terms of quality and resolution scalability. The proposed 2-D-SALP scheme results in better performance compared to the existing adaptive update lifting schemes.

Diagnostic methodology for incipient system disturbance based on a neural wavelet approach

NASA Astrophysics Data System (ADS)

Won, In-Ho

Since incipient system disturbances are easily mixed up with other events or noise sources, the signal from the system disturbance can be neglected or identified as noise. Thus, as available knowledge and information is obtained incompletely or inexactly from the measurements; an exploration into the use of artificial intelligence (AI) tools to overcome these uncertainties and limitations was done. A methodology integrating the feature extraction efficiency of the wavelet transform with the classification capabilities of neural networks is developed for signal classification in the context of detecting incipient system disturbances. The synergistic effects of wavelets and neural networks present more strength and less weakness than either technique taken alone. A wavelet feature extractor is developed to form concise feature vectors for neural network inputs. The feature vectors are calculated from wavelet coefficients to reduce redundancy and computational expense. During this procedure, the statistical features based on the fractal concept to the wavelet coefficients play a role as crucial key in the wavelet feature extractor. To verify the proposed methodology, two applications are investigated and successfully tested. The first involves pump cavitation detection using dynamic pressure sensor. The second pertains to incipient pump cavitation detection using signals obtained from a current sensor. Also, through comparisons between three proposed feature vectors and with statistical techniques, it is shown that the variance feature extractor provides a better approach in the performed applications.

Wavelets and Multifractal Analysis

DTIC Science & Technology

2004-07-01

distribution unlimited 13. SUPPLEMENTARY NOTES See also ADM001750, Wavelets and Multifractal Analysis (WAMA) Workshop held on 19-31 July 2004., The original...f)] . . . 16 2.5.4 Detrended Fluctuation Analysis [DFA(m)] . . . . . . . . . . . . . . . 17 2.6 Scale-Independent Measures...18 2.6.1 Detrended -Fluctuation- Analysis Power-Law Exponent (αD) . . . . . . 18 2.6.2 Wavelet-Transform Power-Law Exponent

Target Detection and Classification Using Seismic and PIR Sensors

DTIC Science & Technology

2012-06-01

time series analysis via wavelet - based partitioning,” Signal Process...regard, this paper presents a wavelet - based method for target detection and classification. The proposed method has been validated on data sets of...The work reported in this paper makes use of a wavelet - based feature extraction method , called Symbolic Dynamic Filtering (SDF) [12]–[14]. The

Wavelet Transforms in Parallel Image Processing

DTIC Science & Technology

1994-01-27

NUMBER OF PAGES Object Segmentation, Texture Segmentation, Image Compression, Image 137 Halftoning , Neural Network, Parallel Algorithms, 2D and 3D...Vector Quantization of Wavelet Transform Coefficients ........ ............................. 57 B.1.f Adaptive Image Halftoning based on Wavelet...application has been directed to the adaptive image halftoning . The gray information at a pixel, including its gray value and gradient, is represented by

Image analysis tools and emerging algorithms for expression proteomics

PubMed Central

English, Jane A.; Lisacek, Frederique; Morris, Jeffrey S.; Yang, Guang-Zhong; Dunn, Michael J.

2012-01-01

Since their origins in academic endeavours in the 1970s, computational analysis tools have matured into a number of established commercial packages that underpin research in expression proteomics. In this paper we describe the image analysis pipeline for the established 2-D Gel Electrophoresis (2-DE) technique of protein separation, and by first covering signal analysis for Mass Spectrometry (MS), we also explain the current image analysis workflow for the emerging high-throughput ‘shotgun’ proteomics platform of Liquid Chromatography coupled to MS (LC/MS). The bioinformatics challenges for both methods are illustrated and compared, whilst existing commercial and academic packages and their workflows are described from both a user’s and a technical perspective. Attention is given to the importance of sound statistical treatment of the resultant quantifications in the search for differential expression. Despite wide availability of proteomics software, a number of challenges have yet to be overcome regarding algorithm accuracy, objectivity and automation, generally due to deterministic spot-centric approaches that discard information early in the pipeline, propagating errors. We review recent advances in signal and image analysis algorithms in 2-DE, MS, LC/MS and Imaging MS. Particular attention is given to wavelet techniques, automated image-based alignment and differential analysis in 2-DE, Bayesian peak mixture models and functional mixed modelling in MS, and group-wise consensus alignment methods for LC/MS. PMID:21046614

Multispectra CWT-based algorithm (MCWT) in mass spectra for peak extraction.

PubMed

Hsueh, Huey-Miin; Kuo, Hsun-Chih; Tsai, Chen-An

2008-01-01

An important objective in mass spectrometry (MS) is to identify a set of biomarkers that can be used to potentially distinguish patients between distinct treatments (or conditions) from tens or hundreds of spectra. A common two-step approach involving peak extraction and quantification is employed to identify the features of scientific interest. The selected features are then used for further investigation to understand underlying biological mechanism of individual protein or for development of genomic biomarkers to early diagnosis. However, the use of inadequate or ineffective peak detection and peak alignment algorithms in peak extraction step may lead to a high rate of false positives. Also, it is crucial to reduce the false positive rate in detecting biomarkers from ten or hundreds of spectra. Here a new procedure is introduced for feature extraction in mass spectrometry data that extends the continuous wavelet transform-based (CWT-based) algorithm to multiple spectra. The proposed multispectra CWT-based algorithm (MCWT) not only can perform peak detection for multiple spectra but also carry out peak alignment at the same time. The author' MCWT algorithm constructs a reference, which integrates information of multiple raw spectra, for feature extraction. The algorithm is applied to a SELDI-TOF mass spectra data set provided by CAMDA 2006 with known polypeptide m/z positions. This new approach is easy to implement and it outperforms the existing peak extraction method from the Bioconductor PROcess package.

Identification of large geomorphological anomalies based on 2D discrete wavelet transform

NASA Astrophysics Data System (ADS)

Doglioni, A.; Simeone, V.

2012-04-01

The identification and analysis based on quantitative evidences of large geomorphological anomalies is an important stage for the study of large landslides. Numerical geomorphic analyses represent an interesting approach to this kind of studies, allowing for a detailed and pretty accurate identification of hidden topographic anomalies that may be related to large landslides. Here a geomorphic numerical analyses of the Digital Terrain Model (DTM) is presented. The introduced approach is based on 2D discrete wavelet transform (Antoine et al., 2003; Bruun and Nilsen, 2003, Booth et al., 2009). The 2D wavelet decomposition of the DTM, and in particular the analysis of the detail coefficients of the wavelet transform can provide evidences of anomalies or singularities, i.e. discontinuities of the land surface. These discontinuities are not very evident from the DTM as it is, while 2D wavelet transform allows for grid-based analysis of DTM and for mapping the decomposition. In fact, the grid-based DTM can be assumed as a matrix, where a discrete wavelet transform (Daubechies, 1992) is performed columnwise and linewise, which basically represent horizontal and vertical directions. The outcomes of this analysis are low-frequency approximation coefficients and high-frequency detail coefficients. Detail coefficients are analyzed, since their variations are associated to discontinuities of the DTM. Detailed coefficients are estimated assuming to perform 2D wavelet transform both for the horizontal direction (east-west) and for the vertical direction (north-south). Detail coefficients are then mapped for both the cases, thus allowing to visualize and quantify potential anomalies of the land surface. Moreover, wavelet decomposition can be pushed to further levels, assuming a higher scale number of the transform. This may potentially return further interesting results, in terms of identification of the anomalies of land surface. In this kind of approach, the choice of a proper mother wavelet function is a tricky point, since it conditions the analysis and then their outcomes. Therefore multiple levels as well as multiple wavelet analyses are guessed. Here the introduced approach is applied to some interesting cases study of south Italy, in particular for the identification of large anomalies associated to large landslides at the transition between Apennine chain domain and the foredeep domain. In particular low Biferno valley and Fortore valley are here analyzed. Finally, the wavelet transforms are performed on multiple levels, thus trying to address the problem of which is the level extent for an accurate analysis fit to a specific problem. Antoine J.P., Carrette P., Murenzi R., and Piette B., (2003), Image analysis with two-dimensional continuous wavelet transform, Signal Processing, 31(3), pp. 241-272, doi:10.1016/0165-1684(93)90085-O. Booth A.M., Roering J.J., and Taylor Perron J., (2009), Automated landslide mapping using spectral analysis and high-resolution topographic data: Puget Sound lowlands, Washington, and Portland Hills, Oregon, Geomorphology, 109(3-4), pp. 132-147, doi:10.1016/j.geomorph.2009.02.027. Bruun B.T., and Nilsen S., (2003), Wavelet representation of large digital terrain models, Computers and Geoscience, 29(6), pp. 695-703, doi:10.1016/S0098-3004(03)00015-3. Daubechies, I. (1992), Ten lectures on wavelets, SIAM.

Multiresolution With Super-Compact Wavelets

NASA Technical Reports Server (NTRS)

Lee, Dohyung

2000-01-01

The solution data computed from large scale simulations are sometimes too big for main memory, for local disks, and possibly even for a remote storage disk, creating tremendous processing time as well as technical difficulties in analyzing the data. The excessive storage demands a corresponding huge penalty in I/O time, rendering time and transmission time between different computer systems. In this paper, a multiresolution scheme is proposed to compress field simulation or experimental data without much loss of important information in the representation. Originally, the wavelet based multiresolution scheme was introduced in image processing, for the purposes of data compression and feature extraction. Unlike photographic image data which has rather simple settings, computational field simulation data needs more careful treatment in applying the multiresolution technique. While the image data sits on a regular spaced grid, the simulation data usually resides on a structured curvilinear grid or unstructured grid. In addition to the irregularity in grid spacing, the other difficulty is that the solutions consist of vectors instead of scalar values. The data characteristics demand more restrictive conditions. In general, the photographic images have very little inherent smoothness with discontinuities almost everywhere. On the other hand, the numerical solutions have smoothness almost everywhere and discontinuities in local areas (shock, vortices, and shear layers). The wavelet bases should be amenable to the solution of the problem at hand and applicable to constraints such as numerical accuracy and boundary conditions. In choosing a suitable wavelet basis for simulation data among a variety of wavelet families, the supercompact wavelets designed by Beam and Warming provide one of the most effective multiresolution schemes. Supercompact multi-wavelets retain the compactness of Haar wavelets, are piecewise polynomial and orthogonal, and can have arbitrary order of approximation. The advantages of the multiresolution algorithm are that no special treatment is required at the boundaries of the interval, and that the application to functions which are only piecewise continuous (internal boundaries) can be efficiently implemented. In this presentation, Beam's supercompact wavelets are generalized to higher dimensions using multidimensional scaling and wavelet functions rather than alternating the directions as in the 1D version. As a demonstration of actual 3D data compression, supercompact wavelet transforms are applied to a 3D data set for wing tip vortex flow solutions (2.5 million grid points). It is shown that high data compression ratio can be achieved (around 50:1 ratio) in both vector and scalar data set.

The wavelet analysis for the assessment of microvascular function with the laser Doppler fluxmetry over the last 20 years. Looking for hidden informations.

PubMed

Martini, Romeo; Bagno, Andrea

2018-04-14

The wavelet analysis has been applied to the Laser Doppler Fluxmetry for assessing the frequency spectrum of the flowmotion to study the microvascular function waves.Although the application of wavelet analysis has allowed a detailed evaluation of the microvascular function, its use does not seem to be yet widespread over the last two decades.Aiming to improve the diffusion of this methodology, we herein present a systematic review of the literature about the application of the wavelet analysis to the laser Doppler fluxmetry signal. A computer research has been performed on PubMed and Scopus databases from January 1990 to December 2017. The used terms for the investigation have been "wavelet analysis", "wavelet transform analysis", "Morlet wavelet transform" along with the terms "laser Doppler", "laserdoppler" and/or "flowmetry" or "fluxmetry". One hundred and eighteen studies have been found. After the scrutiny, 97 studies reporting data on humans have been selected. Fifty-three studies, 54.0% (95% CI 44.2-63.6) pooled rate, have been performed on 892 healthy subjects and 44, 45,9 % (95% CI 36.3-55.7%) pooled rate have been performed on 1679 patients. No significant difference has been found between the two groups (p 0,81). On average, the number of studies published each year was 4.8 (95% CI 3.4-6.2). The trend of studies production has increased significantly from 1998 to 2017, (p 0.0006). But only the studies on patients have shown a significant increase trend along the years (p 0.0003), than the studies on healthy subjects (p 0.09).In conclusion, this review highlights that despite being a promising and interesting methodology for the study of the microcirculatory function, the wavelet analysis has remained still neglected.

A new fractional wavelet transform

NASA Astrophysics Data System (ADS)

Dai, Hongzhe; Zheng, Zhibao; Wang, Wei

2017-03-01

The fractional Fourier transform (FRFT) is a potent tool to analyze the time-varying signal. However, it fails in locating the fractional Fourier domain (FRFD)-frequency contents which is required in some applications. A novel fractional wavelet transform (FRWT) is proposed to solve this problem. It displays the time and FRFD-frequency information jointly in the time-FRFD-frequency plane. The definition, basic properties, inverse transform and reproducing kernel of the proposed FRWT are considered. It has been shown that an FRWT with proper order corresponds to the classical wavelet transform (WT). The multiresolution analysis (MRA) associated with the developed FRWT, together with the construction of the orthogonal fractional wavelets are also presented. Three applications are discussed: the analysis of signal with time-varying frequency content, the FRFD spectrum estimation of signals that involving noise, and the construction of fractional Harr wavelet. Simulations verify the validity of the proposed FRWT.

The design and implementation of signal decomposition system of CL multi-wavelet transform based on DSP builder

NASA Astrophysics Data System (ADS)

Huang, Yan; Wang, Zhihui

2015-12-01

With the development of FPGA, DSP Builder is widely applied to design system-level algorithms. The algorithm of CL multi-wavelet is more advanced and effective than scalar wavelets in processing signal decomposition. Thus, a system of CL multi-wavelet based on DSP Builder is designed for the first time in this paper. The system mainly contains three parts: a pre-filtering subsystem, a one-level decomposition subsystem and a two-level decomposition subsystem. It can be converted into hardware language VHDL by the Signal Complier block that can be used in Quartus II. After analyzing the energy indicator, it shows that this system outperforms Daubenchies wavelet in signal decomposition. Furthermore, it has proved to be suitable for the implementation of signal fusion based on SoPC hardware, and it will become a solid foundation in this new field.

Scalets, wavelets and (complex) turning point quantization

NASA Astrophysics Data System (ADS)

Handy, C. R.; Brooks, H. A.

2001-05-01

Despite the many successes of wavelet analysis in image and signal processing, the incorporation of continuous wavelet transform theory within quantum mechanics has lacked a compelling, first principles, motivating analytical framework, until now. For arbitrary one-dimensional rational fraction Hamiltonians, we develop a simple, unified formalism, which clearly underscores the complementary, and mutually interdependent, role played by moment quantization theory (i.e. via scalets, as defined herein) and wavelets. This analysis involves no approximation of the Hamiltonian within the (equivalent) wavelet space, and emphasizes the importance of (complex) multiple turning point contributions in the quantization process. We apply the method to three illustrative examples. These include the (double-well) quartic anharmonic oscillator potential problem, V(x) = Z2x2 + gx4, the quartic potential, V(x) = x4, and the very interesting and significant non-Hermitian potential V(x) = -(ix)3, recently studied by Bender and Boettcher.

Digital transceiver implementation for wavelet packet modulation

NASA Astrophysics Data System (ADS)

Lindsey, Alan R.; Dill, Jeffrey C.

1998-03-01

Current transceiver designs for wavelet-based communication systems are typically reliant on analog waveform synthesis, however, digital processing is an important part of the eventual success of these techniques. In this paper, a transceiver implementation is introduced for the recently introduced wavelet packet modulation scheme which moves the analog processing as far as possible toward the antenna. The transceiver is based on the discrete wavelet packet transform which incorporates level and node parameters for generalized computation of wavelet packets. In this transform no particular structure is imposed on the filter bank save dyadic branching, and a maximum level which is specified a priori and dependent mainly on speed and/or cost considerations. The transmitter/receiver structure takes a binary sequence as input and, based on the desired time- frequency partitioning, processes the signal through demultiplexing, synthesis, analysis, multiplexing and data determination completely in the digital domain - with exception of conversion in and out of the analog domain for transmission.

An introduction to wavelet analysis in oceanography and meteorology - With application to the dispersion of Yanai waves

NASA Technical Reports Server (NTRS)

Meyers, Steven D.; Kelly, B. G.; O'Brien, J. J.

1993-01-01

Wavelet analysis is a relatively new technique that is an important addition to standard signal analysis methods. Unlike Fourier analysis that yields an average amplitude and phase for each harmonic in a dataset, the wavelet transform produces an instantaneous estimate or local value for the amplitude and phase of each harmonic. This allows detailed study of nonstationary spatial or time-dependent signal characteristics. The wavelet transform is discussed, examples are given, and some methods for preprocessing data for wavelet analysis are compared. By studying the dispersion of Yanai waves in a reduced gravity equatorial model, the usefulness of the transform is demonstrated. The group velocity is measured directly over a finite range of wavenumbers by examining the time evolution of the transform. The results agree well with linear theory at higher wavenumber but the measured group velocity is reduced at lower wavenumbers, possibly due to interaction with the basin boundaries.

Modular continuous wavelet processing of biosignals: extracting heart rate and oxygen saturation from a video signal

PubMed Central

2016-01-01

A novel method of extracting heart rate and oxygen saturation from a video-based biosignal is described. The method comprises a novel modular continuous wavelet transform approach which includes: performing the transform, undertaking running wavelet archetyping to enhance the pulse information, extraction of the pulse ridge time–frequency information [and thus a heart rate (HRvid) signal], creation of a wavelet ratio surface, projection of the pulse ridge onto the ratio surface to determine the ratio of ratios from which a saturation trending signal is derived, and calibrating this signal to provide an absolute saturation signal (SvidO2). The method is illustrated through its application to a video photoplethysmogram acquired during a porcine model of acute desaturation. The modular continuous wavelet transform-based approach is advocated by the author as a powerful methodology to deal with noisy, non-stationary biosignals in general. PMID:27382479

Two-Layer Fragile Watermarking Method Secured with Chaotic Map for Authentication of Digital Holy Quran

PubMed Central

Khalil, Mohammed S.; Khan, Muhammad Khurram; Alginahi, Yasser M.

2014-01-01

This paper presents a novel watermarking method to facilitate the authentication and detection of the image forgery on the Quran images. Two layers of embedding scheme on wavelet and spatial domain are introduced to enhance the sensitivity of fragile watermarking and defend the attacks. Discrete wavelet transforms are applied to decompose the host image into wavelet prior to embedding the watermark in the wavelet domain. The watermarked wavelet coefficient is inverted back to spatial domain then the least significant bits is utilized to hide another watermark. A chaotic map is utilized to blur the watermark to make it secure against the local attack. The proposed method allows high watermark payloads, while preserving good image quality. Experiment results confirm that the proposed methods are fragile and have superior tampering detection even though the tampered area is very small. PMID:25028681

Two-layer fragile watermarking method secured with chaotic map for authentication of digital Holy Quran.

PubMed

Khalil, Mohammed S; Kurniawan, Fajri; Khan, Muhammad Khurram; Alginahi, Yasser M

2014-01-01

This paper presents a novel watermarking method to facilitate the authentication and detection of the image forgery on the Quran images. Two layers of embedding scheme on wavelet and spatial domain are introduced to enhance the sensitivity of fragile watermarking and defend the attacks. Discrete wavelet transforms are applied to decompose the host image into wavelet prior to embedding the watermark in the wavelet domain. The watermarked wavelet coefficient is inverted back to spatial domain then the least significant bits is utilized to hide another watermark. A chaotic map is utilized to blur the watermark to make it secure against the local attack. The proposed method allows high watermark payloads, while preserving good image quality. Experiment results confirm that the proposed methods are fragile and have superior tampering detection even though the tampered area is very small.

An improved wavelet-Galerkin method for dynamic response reconstruction and parameter identification of shear-type frames

NASA Astrophysics Data System (ADS)

Bu, Haifeng; Wang, Dansheng; Zhou, Pin; Zhu, Hongping

2018-04-01

An improved wavelet-Galerkin (IWG) method based on the Daubechies wavelet is proposed for reconstructing the dynamic responses of shear structures. The proposed method flexibly manages wavelet resolution level according to excitation, thereby avoiding the weakness of the wavelet-Galerkin multiresolution analysis (WGMA) method in terms of resolution and the requirement of external excitation. IWG is implemented by this work in certain case studies, involving single- and n-degree-of-freedom frame structures subjected to a determined discrete excitation. Results demonstrate that IWG performs better than WGMA in terms of accuracy and computation efficiency. Furthermore, a new method for parameter identification based on IWG and an optimization algorithm are also developed for shear frame structures, and a simultaneous identification of structural parameters and excitation is implemented. Numerical results demonstrate that the proposed identification method is effective for shear frame structures.

Operational safety assessment of turbo generators with wavelet Rényi entropy from sensor-dependent vibration signals.

PubMed

Zhang, Xiaoli; Wang, Baojian; Chen, Xuefeng

2015-04-16

With the rapid development of sensor technology, various professional sensors are installed on modern machinery to monitor operational processes and assure operational safety, which play an important role in industry and society. In this work a new operational safety assessment approach with wavelet Rényi entropy utilizing sensor-dependent vibration signals is proposed. On the basis of a professional sensor and the corresponding system, sensor-dependent vibration signals are acquired and analyzed by a second generation wavelet package, which reflects time-varying operational characteristic of individual machinery. Derived from the sensor-dependent signals' wavelet energy distribution over the observed signal frequency range, wavelet Rényi entropy is defined to compute the operational uncertainty of a turbo generator, which is then associated with its operational safety degree. The proposed method is applied in a 50 MW turbo generator, whereupon it is proved to be reasonable and effective for operation and maintenance.

Wavelet Analyses of Oil Prices, USD Variations and Impact on Logistics

NASA Astrophysics Data System (ADS)

Melek, M.; Tokgozlu, A.; Aslan, Z.

2009-07-01

This paper is related with temporal variations of historical oil prices and Dollar and Euro in Turkey. Daily data based on OECD and Central Bank of Turkey records beginning from 1946 has been considered. 1D-continuous wavelets and wavelet packets analysis techniques have been applied on data. Wavelet techniques help to detect abrupt changing's, increasing and decreasing trends of data. Estimation of variables has been presented by using linear regression estimation techniques. The results of this study have been compared with the small and large scale effects. Transportation costs of track show a similar variation with fuel prices. The second part of the paper is related with estimation of imports, exports, costs, total number of vehicles and annual variations by considering temporal variation of oil prices and Dollar currency in Turkey. Wavelet techniques offer a user friendly methodology to interpret some local effects on increasing trend of imports and exports data.

Wavelet based analysis of multi-electrode EEG-signals in epilepsy

NASA Astrophysics Data System (ADS)

Hein, Daniel A.; Tetzlaff, Ronald

2005-06-01

For many epilepsy patients seizures cannot sufficiently be controlled by an antiepileptic pharmacatherapy. Furthermore, only in small number of cases a surgical treatment may be possible. The aim of this work is to contribute to the realization of an implantable seizure warning device. By using recordings of electroenzephalographical(EEG) signals obtained from the department of epileptology of the University of Bonn we studied a recently proposed algorithm for the detection of parameter changes in nonlinear systems. Firstly, after calculating the crosscorrelation function between the signals of two electrodes near the epileptic focus, a wavelet-analysis follows using a sliding window with the so called Mexican-Hat wavelet. Then the Shannon-Entropy of the wavelet-transformed data has been determined providing the information content on a time scale in subject to the dilation of the wavelet-transformation. It shows distinct changes at the seizure onset for all dilations and for all patients.

Denoising time-domain induced polarisation data using wavelet techniques

NASA Astrophysics Data System (ADS)

Deo, Ravin N.; Cull, James P.

2016-05-01

Time-domain induced polarisation (TDIP) methods are routinely used for near-surface evaluations in quasi-urban environments harbouring networks of buried civil infrastructure. A conventional technique for improving signal to noise ratio in such environments is by using analogue or digital low-pass filtering followed by stacking and rectification. However, this induces large distortions in the processed data. In this study, we have conducted the first application of wavelet based denoising techniques for processing raw TDIP data. Our investigation included laboratory and field measurements to better understand the advantages and limitations of this technique. It was found that distortions arising from conventional filtering can be significantly avoided with the use of wavelet based denoising techniques. With recent advances in full-waveform acquisition and analysis, incorporation of wavelet denoising techniques can further enhance surveying capabilities. In this work, we present the rationale for utilising wavelet denoising methods and discuss some important implications, which can positively influence TDIP methods.

On wavelet analysis of auditory evoked potentials.

PubMed

Bradley, A P; Wilson, W J

2004-05-01

To determine a preferred wavelet transform (WT) procedure for multi-resolution analysis (MRA) of auditory evoked potentials (AEP). A number of WT algorithms, mother wavelets, and pre-processing techniques were examined by way of critical theoretical discussion followed by experimental testing of key points using real and simulated auditory brain-stem response (ABR) waveforms. Conclusions from these examinations were then tested on a normative ABR dataset. The results of the various experiments are reported in detail. Optimal AEP WT MRA is most likely to occur when an over-sampled discrete wavelet transformation (DWT) is used, utilising a smooth (regularity >or=3) and symmetrical (linear phase) mother wavelet, and a reflection boundary extension policy. This study demonstrates the practical importance of, and explains how to minimize potential artefacts due to, 4 inter-related issues relevant to AEP WT MRA, namely shift variance, phase distortion, reconstruction smoothness, and boundary artefacts.

A study on multiresolution lossless video coding using inter/intra frame adaptive prediction

NASA Astrophysics Data System (ADS)

Nakachi, Takayuki; Sawabe, Tomoko; Fujii, Tetsuro

2003-06-01

Lossless video coding is required in the fields of archiving and editing digital cinema or digital broadcasting contents. This paper combines a discrete wavelet transform and adaptive inter/intra-frame prediction in the wavelet transform domain to create multiresolution lossless video coding. The multiresolution structure offered by the wavelet transform facilitates interchange among several video source formats such as Super High Definition (SHD) images, HDTV, SDTV, and mobile applications. Adaptive inter/intra-frame prediction is an extension of JPEG-LS, a state-of-the-art lossless still image compression standard. Based on the image statistics of the wavelet transform domains in successive frames, inter/intra frame adaptive prediction is applied to the appropriate wavelet transform domain. This adaptation offers superior compression performance. This is achieved with low computational cost and no increase in additional information. Experiments on digital cinema test sequences confirm the effectiveness of the proposed algorithm.

A 2D Daubechies finite wavelet domain method for transient wave response analysis in shear deformable laminated composite plates

NASA Astrophysics Data System (ADS)

Nastos, C. V.; Theodosiou, T. C.; Rekatsinas, C. S.; Saravanos, D. A.

2018-03-01

An efficient numerical method is developed for the simulation of dynamic response and the prediction of the wave propagation in composite plate structures. The method is termed finite wavelet domain method and takes advantage of the outstanding properties of compactly supported 2D Daubechies wavelet scaling functions for the spatial interpolation of displacements in a finite domain of a plate structure. The development of the 2D wavelet element, based on the first order shear deformation laminated plate theory is described and equivalent stiffness, mass matrices and force vectors are calculated and synthesized in the wavelet domain. The transient response is predicted using the explicit central difference time integration scheme. Numerical results for the simulation of wave propagation in isotropic, quasi-isotropic and cross-ply laminated plates are presented and demonstrate the high spatial convergence and problem size reduction obtained by the present method.

Application of improved wavelet total variation denoising for rolling bearing incipient fault diagnosis

NASA Astrophysics Data System (ADS)

Zhang, W.; Jia, M. P.

2018-06-01

When incipient fault appear in the rolling bearing, the fault feature is too small and easily submerged in the strong background noise. In this paper, wavelet total variation denoising based on kurtosis (Kurt-WATV) is studied, which can extract the incipient fault feature of the rolling bearing more effectively. The proposed algorithm contains main steps: a) establish a sparse diagnosis model, b) represent periodic impulses based on the redundant wavelet dictionary, c) solve the joint optimization problem by alternating direction method of multipliers (ADMM), d) obtain the reconstructed signal using kurtosis value as criterion and then select optimal wavelet subbands. This paper uses overcomplete rational-dilation wavelet transform (ORDWT) as a dictionary, and adjusts the control parameters to achieve the concentration in the time-frequency plane. Incipient fault of rolling bearing is used as an example, and the result shows that the effectiveness and superiority of the proposed Kurt- WATV bearing fault diagnosis algorithm.

3-D surface profilometry based on modulation measurement by applying wavelet transform method

NASA Astrophysics Data System (ADS)

Zhong, Min; Chen, Feng; Xiao, Chao; Wei, Yongchao

2017-01-01

A new analysis of 3-D surface profilometry based on modulation measurement technique by the application of Wavelet Transform method is proposed. As a tool excelling for its multi-resolution and localization in the time and frequency domains, Wavelet Transform method with good localized time-frequency analysis ability and effective de-noizing capacity can extract the modulation distribution more accurately than Fourier Transform method. Especially for the analysis of complex object, more details of the measured object can be well remained. In this paper, the theoretical derivation of Wavelet Transform method that obtains the modulation values from a captured fringe pattern is given. Both computer simulation and elementary experiment are used to show the validity of the proposed method by making a comparison with the results of Fourier Transform method. The results show that the Wavelet Transform method has a better performance than the Fourier Transform method in modulation values retrieval.

ICER-3D: A Progressive Wavelet-Based Compressor for Hyperspectral Images

NASA Technical Reports Server (NTRS)

Kiely, A.; Klimesh, M.; Xie, H.; Aranki, N.

2005-01-01

ICER-3D is a progressive, wavelet-based compressor for hyperspectral images. ICER-3D is derived from the ICER image compressor. ICER-3D can provide lossless and lossy compression, and incorporates an error-containment scheme to limit the effects of data loss during transmission. The three-dimensional wavelet decomposition structure used by ICER-3D exploits correlations in all three dimensions of hyperspectral data sets, while facilitating elimination of spectral ringing artifacts. Correlation is further exploited by a context modeler that effectively exploits spectral dependencies in the wavelet-transformed hyperspectral data. Performance results illustrating the benefits of these features are presented.

A wavelet approach to binary blackholes with asynchronous multitasking

NASA Astrophysics Data System (ADS)

Lim, Hyun; Hirschmann, Eric; Neilsen, David; Anderson, Matthew; Debuhr, Jackson; Zhang, Bo

2016-03-01

Highly accurate simulations of binary black holes and neutron stars are needed to address a variety of interesting problems in relativistic astrophysics. We present a new method for the solving the Einstein equations (BSSN formulation) using iterated interpolating wavelets. Wavelet coefficients provide a direct measure of the local approximation error for the solution and place collocation points that naturally adapt to features of the solution. Further, they exhibit exponential convergence on unevenly spaced collection points. The parallel implementation of the wavelet simulation framework presented here deviates from conventional practice in combining multi-threading with a form of message-driven computation sometimes referred to as asynchronous multitasking.

Objective research of auscultation signals in Traditional Chinese Medicine based on wavelet packet energy and support vector machine.

PubMed

Yan, Jianjun; Shen, Xiaojing; Wang, Yiqin; Li, Fufeng; Xia, Chunming; Guo, Rui; Chen, Chunfeng; Shen, Qingwei

2010-01-01

This study aims at utilising Wavelet Packet Transform (WPT) and Support Vector Machine (SVM) algorithm to make objective analysis and quantitative research for the auscultation in Traditional Chinese Medicine (TCM) diagnosis. First, Wavelet Packet Decomposition (WPD) at level 6 was employed to split more elaborate frequency bands of the auscultation signals. Then statistic analysis was made based on the extracted Wavelet Packet Energy (WPE) features from WPD coefficients. Furthermore, the pattern recognition was used to distinguish mixed subjects' statistical feature values of sample groups through SVM. Finally, the experimental results showed that the classification accuracies were at a high level.

Peak finding using biorthogonal wavelets

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tan, C.Y.

2000-02-01

The authors show in this paper how they can find the peaks in the input data if the underlying signal is a sum of Lorentzians. In order to project the data into a space of Lorentzian like functions, they show explicitly the construction of scaling functions which look like Lorentzians. From this construction, they can calculate the biorthogonal filter coefficients for both the analysis and synthesis functions. They then compare their biorthogonal wavelets to the FBI (Federal Bureau of Investigations) wavelets when used for peak finding in noisy data. They will show that in this instance, their filters perform muchmore » better than the FBI wavelets.« less

Rejection of the maternal electrocardiogram in the electrohysterogram signal.

PubMed

Leman, H; Marque, C

2000-08-01

The electrohysterogram (EHG) signal is mainly corrupted by the mother's electrocardiogram (ECG), which remains present despite analog filtering during acquisition. Wavelets are a powerful denoising tool and have already proved their efficiency on the EHG. In this paper, we propose a new method that employs the redundant wavelet packet transform. We first study wavelet packet coefficient histograms and propose an algorithm to automatically detect the histogram mode number. Using a new criterion, we compute a best basis adapted to the denoising. After EHG wavelet packet coefficient thresholding in the selected basis, the inverse transform is applied. The ECG seems to be very efficiently removed.

Impulse Noise Cancellation of Medical Images Using Wavelet Networks and Median Filters

PubMed Central

Sadri, Amir Reza; Zekri, Maryam; Sadri, Saeid; Gheissari, Niloofar

2012-01-01

This paper presents a new two-stage approach to impulse noise removal for medical images based on wavelet network (WN). The first step is noise detection, in which the so-called gray-level difference and average background difference are considered as the inputs of a WN. Wavelet Network is used as a preprocessing for the second stage. The second step is removing impulse noise with a median filter. The wavelet network presented here is a fixed one without learning. Experimental results show that our method acts on impulse noise effectively, and at the same time preserves chromaticity and image details very well. PMID:23493998

Wavelets for sign language translation

NASA Astrophysics Data System (ADS)

Wilson, Beth J.; Anspach, Gretel

1993-10-01

Wavelet techniques are applied to help extract the relevant parameters of sign language from video images of a person communicating in American Sign Language or Signed English. The compression and edge detection features of two-dimensional wavelet analysis are exploited to enhance the algorithms under development to classify the hand motion, hand location with respect to the body, and handshape. These three parameters have different processing requirements and complexity issues. The results are described for applying various quadrature mirror filter designs to a filterbank implementation of the desired wavelet transform. The overall project is to develop a system that will translate sign language to English to facilitate communication between deaf and hearing people.

Structural health monitoring approach for detecting ice accretion on bridge cable using the Haar Wavelet Transform

NASA Astrophysics Data System (ADS)

Andre, Julia; Kiremidjian, Anne; Liao, Yizheng; Georgakis, Christos; Rajagopal, Ram

2016-04-01

Ice accretion on cables of bridge structures poses serious risk to the structure as well as to vehicular traffic when the ice falls onto the road. Detection of ice formation, quantification of the amount of ice accumulated, and prediction of icefalls will increase the safety and serviceability of the structure. In this paper, an ice accretion detection algorithm is presented based on the Continuous Wavelet Transform (CWT). In the proposed algorithm, the acceleration signals obtained from bridge cables are transformed using wavelet method. The damage sensitive features (DSFs) are defined as a function of the wavelet energy at specific wavelet scales. It is found that as ice accretes on the cables, the mass of cable increases, thus changing the wavelet energies. Hence, the DSFs can be used to track the change of cables mass. To validate the proposed algorithm, we use the data collected from a laboratory experiment conducted at the Technical University of Denmark (DTU). In this experiment, a cable was placed in a wind tunnel as ice volume grew progressively. Several accelerometers were installed at various locations along the testing cable to collect vibration signals.

Design of compactly supported wavelet to match singularities in medical images

NASA Astrophysics Data System (ADS)

Fung, Carrson C.; Shi, Pengcheng

2002-11-01

Analysis and understanding of medical images has important clinical values for patient diagnosis and treatment, as well as technical implications for computer vision and pattern recognition. One of the most fundamental issues is the detection of object boundaries or singularities, which is often the basis for further processes such as organ/tissue recognition, image registration, motion analysis, measurement of anatomical and physiological parameters, etc. The focus of this work involved taking a correlation based approach toward edge detection, by exploiting some of desirable properties of wavelet analysis. This leads to the possibility of constructing a bank of detectors, consisting of multiple wavelet basis functions of different scales which are optimal for specific types of edges, in order to optimally detect all the edges in an image. Our work involved developing a set of wavelet functions which matches the shape of the ramp and pulse edges. The matching algorithm used focuses on matching the edges in the frequency domain. It was proven that this technique could create matching wavelets applicable at all scales. Results have shown that matching wavelets can be obtained for the pulse edge while the ramp edge requires another matching algorithm.

A Hybrid Wavelet-Based Method for the Peak Detection of Photoplethysmography Signals.

PubMed

Li, Suyi; Jiang, Shanqing; Jiang, Shan; Wu, Jiang; Xiong, Wenji; Diao, Shu

2017-01-01

The noninvasive peripheral oxygen saturation (SpO 2 ) and the pulse rate can be extracted from photoplethysmography (PPG) signals. However, the accuracy of the extraction is directly affected by the quality of the signal obtained and the peak of the signal identified; therefore, a hybrid wavelet-based method is proposed in this study. Firstly, we suppressed the partial motion artifacts and corrected the baseline drift by using a wavelet method based on the principle of wavelet multiresolution. And then, we designed a quadratic spline wavelet modulus maximum algorithm to identify the PPG peaks automatically. To evaluate this hybrid method, a reflective pulse oximeter was used to acquire ten subjects' PPG signals under sitting, raising hand, and gently walking postures, and the peak recognition results on the raw signal and on the corrected signal were compared, respectively. The results showed that the hybrid method not only corrected the morphologies of the signal well but also optimized the peaks identification quality, subsequently elevating the measurement accuracy of SpO 2 and the pulse rate. As a result, our hybrid wavelet-based method profoundly optimized the evaluation of respiratory function and heart rate variability analysis.

Medical Image Compression Based on Vector Quantization with Variable Block Sizes in Wavelet Domain

PubMed Central

Jiang, Huiyan; Ma, Zhiyuan; Hu, Yang; Yang, Benqiang; Zhang, Libo

2012-01-01

An optimized medical image compression algorithm based on wavelet transform and improved vector quantization is introduced. The goal of the proposed method is to maintain the diagnostic-related information of the medical image at a high compression ratio. Wavelet transformation was first applied to the image. For the lowest-frequency subband of wavelet coefficients, a lossless compression method was exploited; for each of the high-frequency subbands, an optimized vector quantization with variable block size was implemented. In the novel vector quantization method, local fractal dimension (LFD) was used to analyze the local complexity of each wavelet coefficients, subband. Then an optimal quadtree method was employed to partition each wavelet coefficients, subband into several sizes of subblocks. After that, a modified K-means approach which is based on energy function was used in the codebook training phase. At last, vector quantization coding was implemented in different types of sub-blocks. In order to verify the effectiveness of the proposed algorithm, JPEG, JPEG2000, and fractal coding approach were chosen as contrast algorithms. Experimental results show that the proposed method can improve the compression performance and can achieve a balance between the compression ratio and the image visual quality. PMID:23049544

Medical image compression based on vector quantization with variable block sizes in wavelet domain.

PubMed

Jiang, Huiyan; Ma, Zhiyuan; Hu, Yang; Yang, Benqiang; Zhang, Libo

2012-01-01

An optimized medical image compression algorithm based on wavelet transform and improved vector quantization is introduced. The goal of the proposed method is to maintain the diagnostic-related information of the medical image at a high compression ratio. Wavelet transformation was first applied to the image. For the lowest-frequency subband of wavelet coefficients, a lossless compression method was exploited; for each of the high-frequency subbands, an optimized vector quantization with variable block size was implemented. In the novel vector quantization method, local fractal dimension (LFD) was used to analyze the local complexity of each wavelet coefficients, subband. Then an optimal quadtree method was employed to partition each wavelet coefficients, subband into several sizes of subblocks. After that, a modified K-means approach which is based on energy function was used in the codebook training phase. At last, vector quantization coding was implemented in different types of sub-blocks. In order to verify the effectiveness of the proposed algorithm, JPEG, JPEG2000, and fractal coding approach were chosen as contrast algorithms. Experimental results show that the proposed method can improve the compression performance and can achieve a balance between the compression ratio and the image visual quality.

Adaptive zero-tree structure for curved wavelet image coding

NASA Astrophysics Data System (ADS)

Zhang, Liang; Wang, Demin; Vincent, André

2006-02-01

We investigate the issue of efficient data organization and representation of the curved wavelet coefficients [curved wavelet transform (WT)]. We present an adaptive zero-tree structure that exploits the cross-subband similarity of the curved wavelet transform. In the embedded zero-tree wavelet (EZW) and the set partitioning in hierarchical trees (SPIHT), the parent-child relationship is defined in such a way that a parent has four children, restricted to a square of 2×2 pixels, the parent-child relationship in the adaptive zero-tree structure varies according to the curves along which the curved WT is performed. Five child patterns were determined based on different combinations of curve orientation. A new image coder was then developed based on this adaptive zero-tree structure and the set-partitioning technique. Experimental results using synthetic and natural images showed the effectiveness of the proposed adaptive zero-tree structure for encoding of the curved wavelet coefficients. The coding gain of the proposed coder can be up to 1.2 dB in terms of peak SNR (PSNR) compared to the SPIHT coder. Subjective evaluation shows that the proposed coder preserves lines and edges better than the SPIHT coder.

Adaptive Multilinear Tensor Product Wavelets

DOE PAGES

Weiss, Kenneth; Lindstrom, Peter

2015-08-12

Many foundational visualization techniques including isosurfacing, direct volume rendering and texture mapping rely on piecewise multilinear interpolation over the cells of a mesh. However, there has not been much focus within the visualization community on techniques that efficiently generate and encode globally continuous functions defined by the union of multilinear cells. Wavelets provide a rich context for analyzing and processing complicated datasets. In this paper, we exploit adaptive regular refinement as a means of representing and evaluating functions described by a subset of their nonzero wavelet coefficients. We analyze the dependencies involved in the wavelet transform and describe how tomore » generate and represent the coarsest adaptive mesh with nodal function values such that the inverse wavelet transform is exactly reproduced via simple interpolation (subdivision) over the mesh elements. This allows for an adaptive, sparse representation of the function with on-demand evaluation at any point in the domain. In conclusion, we focus on the popular wavelets formed by tensor products of linear B-splines, resulting in an adaptive, nonconforming but crack-free quadtree (2D) or octree (3D) mesh that allows reproducing globally continuous functions via multilinear interpolation over its cells.« less

Wavelet-based analysis of circadian behavioral rhythms.

PubMed

Leise, Tanya L

2015-01-01

The challenging problems presented by noisy biological oscillators have led to the development of a great variety of methods for accurately estimating rhythmic parameters such as period and amplitude. This chapter focuses on wavelet-based methods, which can be quite effective for assessing how rhythms change over time, particularly if time series are at least a week in length. These methods can offer alternative views to complement more traditional methods of evaluating behavioral records. The analytic wavelet transform can estimate the instantaneous period and amplitude, as well as the phase of the rhythm at each time point, while the discrete wavelet transform can extract the circadian component of activity and measure the relative strength of that circadian component compared to those in other frequency bands. Wavelet transforms do not require the removal of noise or trend, and can, in fact, be effective at removing noise and trend from oscillatory time series. The Fourier periodogram and spectrogram are reviewed, followed by descriptions of the analytic and discrete wavelet transforms. Examples illustrate application of each method and their prior use in chronobiology is surveyed. Issues such as edge effects, frequency leakage, and implications of the uncertainty principle are also addressed. © 2015 Elsevier Inc. All rights reserved.

The use of wavelet filters for reducing noise in posterior fossa Computed Tomography images

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pita-Machado, Reinado; Perez-Diaz, Marlen, E-mail: mperez@uclv.edu.cu; Lorenzo-Ginori, Juan V., E-mail: mperez@uclv.edu.cu

Wavelet transform based de-noising like wavelet shrinkage, gives the good results in CT. This procedure affects very little the spatial resolution. Some applications are reconstruction methods, while others are a posteriori de-noising methods. De-noising after reconstruction is very difficult because the noise is non-stationary and has unknown distribution. Therefore, methods which work on the sinogram-space don’t have this problem, because they always work over a known noise distribution at this point. On the other hand, the posterior fossa in a head CT is a very complex region for physicians, because it is commonly affected by artifacts and noise which aremore » not eliminated during the reconstruction procedure. This can leads to some false positive evaluations. The purpose of our present work is to compare different wavelet shrinkage de-noising filters to reduce noise, particularly in images of the posterior fossa within CT scans in the sinogram-space. This work describes an experimental search for the best wavelets, to reduce Poisson noise in Computed Tomography (CT) scans. Results showed that de-noising with wavelet filters improved the quality of posterior fossa region in terms of an increased CNR, without noticeable structural distortions.« less

Identification of speech transients using variable frame rate analysis and wavelet packets.

PubMed

Rasetshwane, Daniel M; Boston, J Robert; Li, Ching-Chung

2006-01-01

Speech transients are important cues for identifying and discriminating speech sounds. Yoo et al. and Tantibundhit et al. were successful in identifying speech transients and, emphasizing them, improving the intelligibility of speech in noise. However, their methods are computationally intensive and unsuitable for real-time applications. This paper presents a method to identify and emphasize speech transients that combines subband decomposition by the wavelet packet transform with variable frame rate (VFR) analysis and unvoiced consonant detection. The VFR analysis is applied to each wavelet packet to define a transitivity function that describes the extent to which the wavelet coefficients of that packet are changing. Unvoiced consonant detection is used to identify unvoiced consonant intervals and the transitivity function is amplified during these intervals. The wavelet coefficients are multiplied by the transitivity function for that packet, amplifying the coefficients localized at times when they are changing and attenuating coefficients at times when they are steady. Inverse transform of the modified wavelet packet coefficients produces a signal corresponding to speech transients similar to the transients identified by Yoo et al. and Tantibundhit et al. A preliminary implementation of the algorithm runs more efficiently.

Research on the feature extraction and pattern recognition of the distributed optical fiber sensing signal

NASA Astrophysics Data System (ADS)

Wang, Bingjie; Sun, Qi; Pi, Shaohua; Wu, Hongyan

2014-09-01

In this paper, feature extraction and pattern recognition of the distributed optical fiber sensing signal have been studied. We adopt Mel-Frequency Cepstral Coefficient (MFCC) feature extraction, wavelet packet energy feature extraction and wavelet packet Shannon entropy feature extraction methods to obtain sensing signals (such as speak, wind, thunder and rain signals, etc.) characteristic vectors respectively, and then perform pattern recognition via RBF neural network. Performances of these three feature extraction methods are compared according to the results. We choose MFCC characteristic vector to be 12-dimensional. For wavelet packet feature extraction, signals are decomposed into six layers by Daubechies wavelet packet transform, in which 64 frequency constituents as characteristic vector are respectively extracted. In the process of pattern recognition, the value of diffusion coefficient is introduced to increase the recognition accuracy, while keeping the samples for testing algorithm the same. Recognition results show that wavelet packet Shannon entropy feature extraction method yields the best recognition accuracy which is up to 97%; the performance of 12-dimensional MFCC feature extraction method is less satisfactory; the performance of wavelet packet energy feature extraction method is the worst.

Time-localized wavelet multiple regression and correlation

NASA Astrophysics Data System (ADS)

Fernández-Macho, Javier

2018-02-01

This paper extends wavelet methodology to handle comovement dynamics of multivariate time series via moving weighted regression on wavelet coefficients. The concept of wavelet local multiple correlation is used to produce one single set of multiscale correlations along time, in contrast with the large number of wavelet correlation maps that need to be compared when using standard pairwise wavelet correlations with rolling windows. Also, the spectral properties of weight functions are investigated and it is argued that some common time windows, such as the usual rectangular rolling window, are not satisfactory on these grounds. The method is illustrated with a multiscale analysis of the comovements of Eurozone stock markets during this century. It is shown how the evolution of the correlation structure in these markets has been far from homogeneous both along time and across timescales featuring an acute divide across timescales at about the quarterly scale. At longer scales, evidence from the long-term correlation structure can be interpreted as stable perfect integration among Euro stock markets. On the other hand, at intramonth and intraweek scales, the short-term correlation structure has been clearly evolving along time, experiencing a sharp increase during financial crises which may be interpreted as evidence of financial 'contagion'.

A Hybrid Wavelet-Based Method for the Peak Detection of Photoplethysmography Signals

PubMed Central

Jiang, Shanqing; Jiang, Shan; Wu, Jiang; Xiong, Wenji

2017-01-01

The noninvasive peripheral oxygen saturation (SpO2) and the pulse rate can be extracted from photoplethysmography (PPG) signals. However, the accuracy of the extraction is directly affected by the quality of the signal obtained and the peak of the signal identified; therefore, a hybrid wavelet-based method is proposed in this study. Firstly, we suppressed the partial motion artifacts and corrected the baseline drift by using a wavelet method based on the principle of wavelet multiresolution. And then, we designed a quadratic spline wavelet modulus maximum algorithm to identify the PPG peaks automatically. To evaluate this hybrid method, a reflective pulse oximeter was used to acquire ten subjects' PPG signals under sitting, raising hand, and gently walking postures, and the peak recognition results on the raw signal and on the corrected signal were compared, respectively. The results showed that the hybrid method not only corrected the morphologies of the signal well but also optimized the peaks identification quality, subsequently elevating the measurement accuracy of SpO2 and the pulse rate. As a result, our hybrid wavelet-based method profoundly optimized the evaluation of respiratory function and heart rate variability analysis. PMID:29250135

Wavelet-based compression of pathological images for telemedicine applications

NASA Astrophysics Data System (ADS)

Chen, Chang W.; Jiang, Jianfei; Zheng, Zhiyong; Wu, Xue G.; Yu, Lun

2000-05-01

In this paper, we present the performance evaluation of wavelet-based coding techniques as applied to the compression of pathological images for application in an Internet-based telemedicine system. We first study how well suited the wavelet-based coding is as it applies to the compression of pathological images, since these images often contain fine textures that are often critical to the diagnosis of potential diseases. We compare the wavelet-based compression with the DCT-based JPEG compression in the DICOM standard for medical imaging applications. Both objective and subjective measures have been studied in the evaluation of compression performance. These studies are performed in close collaboration with expert pathologists who have conducted the evaluation of the compressed pathological images and communication engineers and information scientists who designed the proposed telemedicine system. These performance evaluations have shown that the wavelet-based coding is suitable for the compression of various pathological images and can be integrated well with the Internet-based telemedicine systems. A prototype of the proposed telemedicine system has been developed in which the wavelet-based coding is adopted for the compression to achieve bandwidth efficient transmission and therefore speed up the communications between the remote terminal and the central server of the telemedicine system.

Local wavelet transform: a cost-efficient custom processor for space image compression

NASA Astrophysics Data System (ADS)

Masschelein, Bart; Bormans, Jan G.; Lafruit, Gauthier

2002-11-01

Thanks to its intrinsic scalability features, the wavelet transform has become increasingly popular as decorrelator in image compression applications. Throuhgput, memory requirements and complexity are important parameters when developing hardware image compression modules. An implementation of the classical, global wavelet transform requires large memory sizes and implies a large latency between the availability of the input image and the production of minimal data entities for entropy coding. Image tiling methods, as proposed by JPEG2000, reduce the memory sizes and the latency, but inevitably introduce image artefacts. The Local Wavelet Transform (LWT), presented in this paper, is a low-complexity wavelet transform architecture using a block-based processing that results in the same transformed images as those obtained by the global wavelet transform. The architecture minimizes the processing latency with a limited amount of memory. Moreover, as the LWT is an instruction-based custom processor, it can be programmed for specific tasks, such as push-broom processing of infinite-length satelite images. The features of the LWT makes it appropriate for use in space image compression, where high throughput, low memory sizes, low complexity, low power and push-broom processing are important requirements.

SU-F-I-59: Quality Assurance Phantom for PET/CT Alignment and Attenuation Correction

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lin, T; Hamacher, K

2016-06-15

Purpose: This study utilizes a commercial PET/CT phantom to investigate two specific properties of a PET/CT system: the alignment accuracy of PET images with those from CT used for attenuation correction and the accuracy of this correction in PET images. Methods: A commercial PET/CT phantom consisting of three aluminum rods, two long central cylinders containing uniform activity, and attenuating materials such as air, water, bone and iodine contrast was scanned using a standard PET/CT protocol. Images reconstructed with 2 mm slice thickness and a 512 by 512 matrix were obtained. The center of each aluminum rod in the PET andmore » CT images was compared to evaluate alignment accuracy. ROIs were drawn on transaxial images of the central rods at each section of attenuating material to determine the corrected activity (in BQML). BQML values were graphed as a function of slice number to provide a visual representation of the attenuation-correction throughout the whole phantom. Results: Alignment accuracy is high between the PET and CT images. The maximum deviation between the two in the axial plane is less than 1.5 mm, which is less than the width of a single pixel. BQML values measured along different sections of the large central rods are similar among the different attenuating materials except iodine contrast. Deviation of BQML values in the air and bone sections from the water section is less than 1%. Conclusion: Accurate alignment of PET and CT images is critical to ensure proper calculation and application of CT-based attenuation correction. This study presents a simple and quick method to evaluate the two with a single acquisition. As the phantom also includes spheres of increasing diameter, this could serve as a straightforward means to annually evaluate the status of a modern PET/CT system.« less

One-year test-retest reliability of intrinsic connectivity network fMRI in older adults

PubMed Central

Guo, Cong C.; Kurth, Florian; Zhou, Juan; Mayer, Emeran A.; Eickhoff, Simon B; Kramer, Joel H.; Seeley, William W.

2014-01-01

“Resting-state” or task-free fMRI can assess intrinsic connectivity network (ICN) integrity in health and disease, suggesting a potential for use of these methods as disease-monitoring biomarkers. Numerous analytical options are available, including model-driven ROI-based correlation analysis and model-free, independent component analysis (ICA). High test-retest reliability will be a necessary feature of a successful ICN biomarker, yet available reliability data remains limited. Here, we examined ICN fMRI test-retest reliability in 24 healthy older subjects scanned roughly one year apart. We focused on the salience network, a disease-relevant ICN not previously subjected to reliability analysis. Most ICN analytical methods proved reliable (intraclass coefficients > 0.4) and could be further improved by wavelet analysis. Seed-based ROI correlation analysis showed high map-wise reliability, whereas graph theoretical measures and temporal concatenation group ICA produced the most reliable individual unit-wise outcomes. Including global signal regression in ROI-based correlation analyses reduced reliability. Our study provides a direct comparison between the most commonly used ICN fMRI methods and potential guidelines for measuring intrinsic connectivity in aging control and patient populations over time. PMID:22446491

Spatial Organization In Europe of Decadal and Interdecadal Fluctuations In Annual Rainfall

NASA Astrophysics Data System (ADS)

Lucero, O. A.; Rodriguez, N. C.

In this research the spatial patterns of decadal and bidecadal fluctuations in annual rainfall in Europe are identified. Filtering of time series of anomaly of annual rainfall is carried out using the Morlet wavelet technique. Reconstruction is achieved by sum- ming the contributions from bands of wavelet timescales; the decadal band and the bidecadal band are composed of contributions from the band of (10- to 17-year] and (17- to 27- year] timescales respectively. Results indicate that 1) the spatial organi- zation of decadal and bidecadal components of annual rainfall are standing wave-like organized patterns. Three standing decadal fluctuations zonally aligned formed the spatial pattern from 1900 until 1931; thereafter the pattern changed into a NW-SE orientation. The decadal band shows an average 12-year period. 2) The spatial orga- nization of bidecadal component was composed of three standing fluctuations since 1903 to 1986. After 1987 two standing bidecadal fluctuations were located on Europe. The orientation of bidecadal fluctuations changed during the period under study. Until 1913 the spatial pattern of the bidecadal component was zonally aligned. Since 1913 until 1986 the three bidecadal fluctuations composing the spatial pattern were aligned SW U NE; starting 1987 the spatial pattern is composed of two standing fluctuations zonally aligned. The bidecadal spatial pattern shows an average period of 20- to 22- year length. 3) At decadal and bidecadal timescales, the first principal component of the spatial field of anomaly of annual rainfall and the NAO index are connected. The upper positive third (lower negative third) of values of first principal component are indicative of extensive area with positive (negative) anomaly of annual rainfall. 4) At decadal timescale the relative phase between the first PC and the NAO index changes through the period under study; these changes define three regimes: 1) Dur- ing the regime covering the period 1900 (start of period under study) to about 1945, at the time of peak values of decadal NAO-index it takes place a transition between extremes (a neutral state) of the decadal rainfall spatial pattern (first PC takes small absolute values). Besides, for positive (negative) peak value of NAO index the spatial pattern of annual rainfall is evolving toward an area of predominantly positive (nega- tive) anomaly. 2) The second regime starts about 1946 and reaches up to early 1980s. At the time of negative (positive) peak of decadal NAO there is a prevailing spatial pattern of positive (negative) anomaly of decadal rainfall. 3) The third regime starts 1 about late 1970s and reaches to the end of the period under study (in 1996). There is a change of relative phase within this period in late 1980s. In this regime a spatial pattern of prevailing positive or negative anomaly of decadal rainfall takes place dur- ing values of decadal NAO close to zero. 5) At bidecadal timescale the relative phase between the first PC and the NAO index remains almost constant through the period under study. The first PC of the transformed bidecadal component of annual rainfall anomaly attains its positive (negative) peak about three years before the bidecadal component of NAO reaches its negative (positive) peak. 2

Simultaneous gene finding in multiple genomes.

PubMed

König, Stefanie; Romoth, Lars W; Gerischer, Lizzy; Stanke, Mario

2016-11-15

As the tree of life is populated with sequenced genomes ever more densely, the new challenge is the accurate and consistent annotation of entire clades of genomes. We address this problem with a new approach to comparative gene finding that takes a multiple genome alignment of closely related species and simultaneously predicts the location and structure of protein-coding genes in all input genomes, thereby exploiting negative selection and sequence conservation. The model prefers potential gene structures in the different genomes that are in agreement with each other, or-if not-where the exon gains and losses are plausible given the species tree. We formulate the multi-species gene finding problem as a binary labeling problem on a graph. The resulting optimization problem is NP hard, but can be efficiently approximated using a subgradient-based dual decomposition approach. The proposed method was tested on whole-genome alignments of 12 vertebrate and 12 Drosophila species. The accuracy was evaluated for human, mouse and Drosophila melanogaster and compared to competing methods. Results suggest that our method is well-suited for annotation of (a large number of) genomes of closely related species within a clade, in particular, when RNA-Seq data are available for many of the genomes. The transfer of existing annotations from one genome to another via the genome alignment is more accurate than previous approaches that are based on protein-spliced alignments, when the genomes are at close to medium distances. The method is implemented in C ++ as part of Augustus and available open source at http://bioinf.uni-greifswald.de/augustus/ CONTACT: stefaniekoenig@ymail.com or mario.stanke@uni-greifswald.deSupplementary information: Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Magnetoacoustic waves propagating along a dense slab and Harris current sheet and their wavelet spectra

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mészárosová, Hana; Karlický, Marian; Jelínek, Petr

Currently, there is a common endeavor to detect magnetoacoustic waves in solar flares. This paper contributes to this topic using an approach of numerical simulations. We studied a spatial and temporal evolution of impulsively generated fast and slow magnetoacoustic waves propagating along the dense slab and Harris current sheet using two-dimensional magnetohydrodynamic numerical models. Wave signals computed in numerical models were used for computations of the temporal and spatial wavelet spectra for their possible comparison with those obtained from observations. It is shown that these wavelet spectra allow us to estimate basic parameters of waveguides and perturbations. It was foundmore » that the wavelet spectra of waves in the dense slab and current sheet differ in additional wavelet components that appear in association with the main tadpole structure. These additional components are new details in the wavelet spectrum of the signal. While in the dense slab this additional component is always delayed after the tadpole head, in the current sheet this component always precedes the tadpole head. It could help distinguish a type of the waveguide in observed data. We present a technique based on wavelets that separates wave structures according to their spatial scales. This technique shows not only how to separate the magnetoacoustic waves and waveguide structure in observed data, where the waveguide structure is not known, but also how propagating magnetoacoustic waves would appear in observations with limited spatial resolutions. The possibilities detecting these waves in observed data are mentioned.« less

[Application of wavelet transform and neural network in the near-infrared spectrum analysis of oil shale].

PubMed

Li, Su-Yi; Ji, Yan-Ju; Liu, Wei-Yu; Wang, Zhi-Hong

2013-04-01

In the present study, an innovative method is proposed, employing both wavelet transform and neural network, to analyze the near-infrared spectrum data in oil shale survey. The method entails using db8 wavelet at 3 levels decomposition to process raw data, using the transformed data as the input matrix, and creating the model through neural network. To verify the validity of the method, this study analyzes 30 synthesized oil shale samples, in which 20 samples are randomly selected for network training, the other 10 for model prediction, and uses the full spectrum and the wavelet transformed spectrum to carry out 10 network models, respectively. Results show that the mean speed of the full spectrum neural network modeling is 570.33 seconds, and the predicted residual sum of squares (PRESS) and correlation coefficient of prediction are 0.006 012 and 0.843 75, respectively. In contrast, the mean speed of the wavelet network modeling method is 3.15 seconds, and the mean PRESS and correlation coefficient of prediction are 0.002 048 and 0.953 19, respectively. These results demonstrate that the wavelet neural network modeling method is significantly superior to the full spectrum neural network modeling method. This study not only provides a new method for more efficient and accurate detection of the oil content of oil shale, but also indicates the potential for applying wavelet transform and neutral network in broad near-infrared spectrum analysis.

Comparison of automatic denoising methods for phonocardiograms with extraction of signal parameters via the Hilbert Transform

NASA Astrophysics Data System (ADS)

Messer, Sheila R.; Agzarian, John; Abbott, Derek

2001-05-01

Phonocardiograms (PCGs) have many advantages over traditional auscultation (listening to the heart) because they may be replayed, may be analyzed for spectral and frequency content, and frequencies inaudible to the human ear may be recorded. However, various sources of noise may pollute a PCG including lung sounds, environmental noise and noise generated from contact between the recording device and the skin. Because PCG signals are known to be nonlinear and it is often not possible to determine their noise content, traditional de-noising methods may not be effectively applied. However, other methods including wavelet de-noising, wavelet packet de-noising and averaging can be employed to de-noise the PCG. This study examines and compares these de-noising methods. This study answers such questions as to which de-noising method gives a better SNR, the magnitude of signal information that is lost as a result of the de-noising process, the appropriate uses of the different methods down to such specifics as to which wavelets and decomposition levels give best results in wavelet and wavelet packet de-noising. In general, the wavelet and wavelet packet de-noising performed roughly equally with optimal de-noising occurring at 3-5 levels of decomposition. Averaging also proved a highly useful de- noising technique; however, in some cases averaging is not appropriate. The Hilbert Transform is used to illustrate the results of the de-noising process and to extract instantaneous features including instantaneous amplitude, frequency, and phase.

Sensor system for heart sound biomonitor

NASA Astrophysics Data System (ADS)

Maple, Jarrad L.; Hall, Leonard T.; Agzarian, John; Abbott, Derek

1999-09-01

Heart sounds can be utilized more efficiently by medical doctors when they are displayed visually, rather than through a conventional stethoscope. A system whereby a digital stethoscope interfaces directly to a PC will be directly along with signal processing algorithms, adopted. The sensor is based on a noise cancellation microphone, with a 450 Hz bandwidth and is sampled at 2250 samples/sec with 12-bit resolution. Further to this, we discuss for comparison a piezo-based sensor with a 1 kHz bandwidth. A major problem is that the recording of the heart sound into these devices is subject to unwanted background noise which can override the heart sound and results in a poor visual representation. This noise originates from various sources such as skin contact with the stethoscope diaphragm, lung sounds, and other surrounding sounds such as speech. Furthermore we demonstrate a solution using 'wavelet denoising'. The wavelet transform is used because of the similarity between the shape of wavelets and the time-domain shape of a heartbeat sound. Thus coding of the waveform into the wavelet domain is achieved with relatively few wavelet coefficients, in contrast to the many Fourier components that would result from conventional decomposition. We show that the background noise can be dramatically reduced by a thresholding operation in the wavelet domain. The principle is that the background noise codes into many small broadband wavelet coefficients that can be removed without significant degradation of the signal of interest.

Optimal wavelet denoising for smart biomonitor systems

NASA Astrophysics Data System (ADS)

Messer, Sheila R.; Agzarian, John; Abbott, Derek

2001-03-01

Future smart-systems promise many benefits for biomedical diagnostics. The ideal is for simple portable systems that display and interpret information from smart integrated probes or MEMS-based devices. In this paper, we will discuss a step towards this vision with a heart bio-monitor case study. An electronic stethoscope is used to record heart sounds and the problem of extracting noise from the signal is addressed via the use of wavelets and averaging. In our example of heartbeat analysis, phonocardiograms (PCGs) have many advantages in that they may be replayed and analysed for spectral and frequency information. Many sources of noise may pollute a PCG including foetal breath sounds if the subject is pregnant, lung and breath sounds, environmental noise and noise from contact between the recording device and the skin. Wavelets can be employed to denoise the PCG. The signal is decomposed by a discrete wavelet transform. Due to the efficient decomposition of heart signals, their wavelet coefficients tend to be much larger than those due to noise. Thus, coefficients below a certain level are regarded as noise and are thresholded out. The signal can then be reconstructed without significant loss of information in the signal. The questions that this study attempts to answer are which wavelet families, levels of decomposition, and thresholding techniques best remove the noise in a PCG. The use of averaging in combination with wavelet denoising is also addressed. Possible applications of the Hilbert Transform to heart sound analysis are discussed.

The Brera Multiscale Wavelet ROSAT HRI Source Catalog. I. The Algorithm

NASA Astrophysics Data System (ADS)

Lazzati, Davide; Campana, Sergio; Rosati, Piero; Panzera, Maria Rosa; Tagliaferri, Gianpiero

1999-10-01

We present a new detection algorithm based on the wavelet transform for the analysis of high-energy astronomical images. The wavelet transform, because of its multiscale structure, is suited to the optimal detection of pointlike as well as extended sources, regardless of any loss of resolution with the off-axis angle. Sources are detected as significant enhancements in the wavelet space, after the subtraction of the nonflat components of the background. Detection thresholds are computed through Monte Carlo simulations in order to establish the expected number of spurious sources per field. The source characterization is performed through a multisource fitting in the wavelet space. The procedure is designed to correctly deal with very crowded fields, allowing for the simultaneous characterization of nearby sources. To obtain a fast and reliable estimate of the source parameters and related errors, we apply a novel decimation technique that, taking into account the correlation properties of the wavelet transform, extracts a subset of almost independent coefficients. We test the performance of this algorithm on synthetic fields, analyzing with particular care the characterization of sources in poor background situations, where the assumption of Gaussian statistics does not hold. In these cases, for which standard wavelet algorithms generally provide underestimated errors, we infer errors through a procedure that relies on robust basic statistics. Our algorithm is well suited to the analysis of images taken with the new generation of X-ray instruments equipped with CCD technology, which will produce images with very low background and/or high source density.

Noncontiguous atom matching structural similarity function.

PubMed

Teixeira, Ana L; Falcao, Andre O

2013-10-28

Measuring similarity between molecules is a fundamental problem in cheminformatics. Given that similar molecules tend to have similar physical, chemical, and biological properties, the notion of molecular similarity plays an important role in the exploration of molecular data sets, query-retrieval in molecular databases, and in structure-property/activity modeling. Various methods to define structural similarity between molecules are available in the literature, but so far none has been used with consistent and reliable results for all situations. We propose a new similarity method based on atom alignment for the analysis of structural similarity between molecules. This method is based on the comparison of the bonding profiles of atoms on comparable molecules, including features that are seldom found in other structural or graph matching approaches like chirality or double bond stereoisomerism. The similarity measure is then defined on the annotated molecular graph, based on an iterative directed graph similarity procedure and optimal atom alignment between atoms using a pairwise matching algorithm. With the proposed approach the similarities detected are more intuitively understood because similar atoms in the molecules are explicitly shown. This noncontiguous atom matching structural similarity method (NAMS) was tested and compared with one of the most widely used similarity methods (fingerprint-based similarity) using three difficult data sets with different characteristics. Despite having a higher computational cost, the method performed well being able to distinguish either different or very similar hydrocarbons that were indistinguishable using a fingerprint-based approach. NAMS also verified the similarity principle using a data set of structurally similar steroids with differences in the binding affinity to the corticosteroid binding globulin receptor by showing that pairs of steroids with a high degree of similarity (>80%) tend to have smaller differences in the absolute value of binding activity. Using a highly diverse set of compounds with information about the monoamine oxidase inhibition level, the method was also able to recover a significantly higher average fraction of active compounds when the seed is active for different cutoff threshold values of similarity. Particularly, for the cutoff threshold values of 86%, 93%, and 96.5%, NAMS was able to recover a fraction of actives of 0.57, 0.63, and 0.83, respectively, while the fingerprint-based approach was able to recover a fraction of actives of 0.41, 0.40, and 0.39, respectively. NAMS is made available freely for the whole community in a simple Web based tool as well as the Python source code at http://nams.lasige.di.fc.ul.pt/.

Texture Analysis of Recurrence Plots Based on Wavelets and PSO for Laryngeal Pathologies Detection.

PubMed

Souza, Taciana A; Vieira, Vinícius J D; Correia, Suzete E N; Costa, Silvana L N C; de A Costa, Washington C; Souza, Micael A

2015-01-01

This paper deals with the discrimination between healthy and pathological speech signals using recurrence plots and wavelet transform with texture features. Approximation and detail coefficients are obtained from the recurrence plots using Haar wavelet transform, considering one decomposition level. The considered laryngeal pathologies are: paralysis, Reinke's edema and nodules. Accuracy rates above 86% were obtained by means of the employed method.

Automated estimation of individual conifer tree height and crown diameter via Two-dimensional spatial wavelet analysis of lidar data

Treesearch

Michael J. Falkowski; Alistair M.S. Smith; Andrew T. Hudak; Paul E. Gessler; Lee A. Vierling; Nicholas L. Crookston

2006-01-01

We describe and evaluate a new analysis technique, spatial wavelet analysis (SWA), to automatically estimate the location, height, and crown diameter of individual trees within mixed conifer open canopy stands from light detection and ranging (lidar) data. Two-dimensional Mexican hat wavelets, over a range of likely tree crown diameters, were convolved with lidar...

Three-dimensional object recognitions from two-dimensional images using wavelet transforms and neural networks

NASA Astrophysics Data System (ADS)

Deschenes, Sylvain; Sheng, Yunlong; Chevrette, Paul C.

1998-03-01

3D object classification from 2D IR images is shown. The wavelet transform is used for edge detection. Edge tracking is used for removing noise effectively int he wavelet transform. The invariant Fourier descriptor is used to describe the contour curves. Invariance under out-of-plane rotation is achieved by the feature space trajectory neural network working as a classifier.

A new approach to global seismic tomography based on regularization by sparsity in a novel 3D spherical wavelet basis

NASA Astrophysics Data System (ADS)

Loris, Ignace; Simons, Frederik J.; Daubechies, Ingrid; Nolet, Guust; Fornasier, Massimo; Vetter, Philip; Judd, Stephen; Voronin, Sergey; Vonesch, Cédric; Charléty, Jean

2010-05-01

Global seismic wavespeed models are routinely parameterized in terms of spherical harmonics, networks of tetrahedral nodes, rectangular voxels, or spherical splines. Up to now, Earth model parametrizations by wavelets on the three-dimensional ball remain uncommon. Here we propose such a procedure with the following three goals in mind: (1) The multiresolution character of a wavelet basis allows for the models to be represented with an effective spatial resolution that varies as a function of position within the Earth. (2) This property can be used to great advantage in the regularization of seismic inversion schemes by seeking the most sparse solution vector, in wavelet space, through iterative minimization of a combination of the ℓ2 (to fit the data) and ℓ1 norms (to promote sparsity in wavelet space). (3) With the continuing increase in high-quality seismic data, our focus is also on numerical efficiency and the ability to use parallel computing in reconstructing the model. In this presentation we propose a new wavelet basis to take advantage of these three properties. To form the numerical grid we begin with a surface tesselation known as the 'cubed sphere', a construction popular in fluid dynamics and computational seismology, coupled with an semi-regular radial subdivison that honors the major seismic discontinuities between the core-mantle boundary and the surface. This mapping first divides the volume of the mantle into six portions. In each 'chunk' two angular and one radial variable are used for parametrization. In the new variables standard 'cartesian' algorithms can more easily be used to perform the wavelet transform (or other common transforms). Edges between chunks are handled by special boundary filters. We highlight the benefits of this construction and use it to analyze the information present in several published seismic compressional-wavespeed models of the mantle, paying special attention to the statistics of wavelet and scaling coefficients across scales. We also focus on the likely gains of future inversions of finite-frequency seismic data using a sparsity promoting penalty in combination with our new wavelet approach.

A Multilayer Network Approach for Guiding Drug Repositioning in Neglected Diseases

PubMed Central

Chernomoretz, Ariel; Agüero, Fernán

2016-01-01

Drug development for neglected diseases has been historically hampered due to lack of market incentives. The advent of public domain resources containing chemical information from high throughput screenings is changing the landscape of drug discovery for these diseases. In this work we took advantage of data from extensively studied organisms like human, mouse, E. coli and yeast, among others, to develop a novel integrative network model to prioritize and identify candidate drug targets in neglected pathogen proteomes, and bioactive drug-like molecules. We modeled genomic (proteins) and chemical (bioactive compounds) data as a multilayer weighted network graph that takes advantage of bioactivity data across 221 species, chemical similarities between 1.7 105 compounds and several functional relations among 1.67 105 proteins. These relations comprised orthology, sharing of protein domains, and shared participation in defined biochemical pathways. We showcase the application of this network graph to the problem of prioritization of new candidate targets, based on the information available in the graph for known compound-target associations. We validated this strategy by performing a cross validation procedure for known mouse and Trypanosoma cruzi targets and showed that our approach outperforms classic alignment-based approaches. Moreover, our model provides additional flexibility as two different network definitions could be considered, finding in both cases qualitatively different but sensible candidate targets. We also showcase the application of the network to suggest targets for orphan compounds that are active against Plasmodium falciparum in high-throughput screens. In this case our approach provided a reduced prioritization list of target proteins for the query molecules and showed the ability to propose new testable hypotheses for each compound. Moreover, we found that some predictions highlighted by our network model were supported by independent experimental validations as found post-facto in the literature. PMID:26735851

Functional classification of protein structures by local structure matching in graph representation.

PubMed

Mills, Caitlyn L; Garg, Rohan; Lee, Joslynn S; Tian, Liang; Suciu, Alexandru; Cooperman, Gene; Beuning, Penny J; Ondrechen, Mary Jo

2018-03-31

As a result of high-throughput protein structure initiatives, over 14,400 protein structures have been solved by structural genomics (SG) centers and participating research groups. While the totality of SG data represents a tremendous contribution to genomics and structural biology, reliable functional information for these proteins is generally lacking. Better functional predictions for SG proteins will add substantial value to the structural information already obtained. Our method described herein, Graph Representation of Active Sites for Prediction of Function (GRASP-Func), predicts quickly and accurately the biochemical function of proteins by representing residues at the predicted local active site as graphs rather than in Cartesian coordinates. We compare the GRASP-Func method to our previously reported method, structurally aligned local sites of activity (SALSA), using the ribulose phosphate binding barrel (RPBB), 6-hairpin glycosidase (6-HG), and Concanavalin A-like Lectins/Glucanase (CAL/G) superfamilies as test cases. In each of the superfamilies, SALSA and the much faster method GRASP-Func yield similar correct classification of previously characterized proteins, providing a validated benchmark for the new method. In addition, we analyzed SG proteins using our SALSA and GRASP-Func methods to predict function. Forty-one SG proteins in the RPBB superfamily, nine SG proteins in the 6-HG superfamily, and one SG protein in the CAL/G superfamily were successfully classified into one of the functional families in their respective superfamily by both methods. This improved, faster, validated computational method can yield more reliable predictions of function that can be used for a wide variety of applications by the community. © 2018 The Authors Protein Science published by Wiley Periodicals, Inc. on behalf of The Protein Society.

A Multilayer Network Approach for Guiding Drug Repositioning in Neglected Diseases.

PubMed

Berenstein, Ariel José; Magariños, María Paula; Chernomoretz, Ariel; Agüero, Fernán

2016-01-01

Drug development for neglected diseases has been historically hampered due to lack of market incentives. The advent of public domain resources containing chemical information from high throughput screenings is changing the landscape of drug discovery for these diseases. In this work we took advantage of data from extensively studied organisms like human, mouse, E. coli and yeast, among others, to develop a novel integrative network model to prioritize and identify candidate drug targets in neglected pathogen proteomes, and bioactive drug-like molecules. We modeled genomic (proteins) and chemical (bioactive compounds) data as a multilayer weighted network graph that takes advantage of bioactivity data across 221 species, chemical similarities between 1.7 105 compounds and several functional relations among 1.67 105 proteins. These relations comprised orthology, sharing of protein domains, and shared participation in defined biochemical pathways. We showcase the application of this network graph to the problem of prioritization of new candidate targets, based on the information available in the graph for known compound-target associations. We validated this strategy by performing a cross validation procedure for known mouse and Trypanosoma cruzi targets and showed that our approach outperforms classic alignment-based approaches. Moreover, our model provides additional flexibility as two different network definitions could be considered, finding in both cases qualitatively different but sensible candidate targets. We also showcase the application of the network to suggest targets for orphan compounds that are active against Plasmodium falciparum in high-throughput screens. In this case our approach provided a reduced prioritization list of target proteins for the query molecules and showed the ability to propose new testable hypotheses for each compound. Moreover, we found that some predictions highlighted by our network model were supported by independent experimental validations as found post-facto in the literature.

IBiSA_Tools: A Computational Toolkit for Ion-Binding State Analysis in Molecular Dynamics Trajectories of Ion Channels.

PubMed

Kasahara, Kota; Kinoshita, Kengo

2016-01-01

Ion conduction mechanisms of ion channels are a long-standing conundrum. Although the molecular dynamics (MD) method has been extensively used to simulate ion conduction dynamics at the atomic level, analysis and interpretation of MD results are not straightforward due to complexity of the dynamics. In our previous reports, we proposed an analytical method called ion-binding state analysis to scrutinize and summarize ion conduction mechanisms by taking advantage of a variety of analytical protocols, e.g., the complex network analysis, sequence alignment, and hierarchical clustering. This approach effectively revealed the ion conduction mechanisms and their dependence on the conditions, i.e., ion concentration and membrane voltage. Here, we present an easy-to-use computational toolkit for ion-binding state analysis, called IBiSA_tools. This toolkit consists of a C++ program and a series of Python and R scripts. From the trajectory file of MD simulations and a structure file, users can generate several images and statistics of ion conduction processes. A complex network named ion-binding state graph is generated in a standard graph format (graph modeling language; GML), which can be visualized by standard network analyzers such as Cytoscape. As a tutorial, a trajectory of a 50 ns MD simulation of the Kv1.2 channel is also distributed with the toolkit. Users can trace the entire process of ion-binding state analysis step by step. The novel method for analysis of ion conduction mechanisms of ion channels can be easily used by means of IBiSA_tools. This software is distributed under an open source license at the following URL: http://www.ritsumei.ac.jp/~ktkshr/ibisa_tools/.

A wavelet analysis of co-movements in Asian gold markets

NASA Astrophysics Data System (ADS)

Das, Debojyoti; Kannadhasan, M.; Al-Yahyaee, Khamis Hamed; Yoon, Seong-Min

2018-02-01

This study assesses the cross-country co-movements of gold spot returns among the major gold consuming countries in Asia using wavelet-based analysis for a dataset spanning over 26 years. Wavelet-based analysis is used since it allows measuring co-movements in a time-frequency space. The results suggest intense and positive co-movements in Asia after the Asian financial crisis of 1997 at all frequencies. In addition, the Asian gold spot markets depict a state of impending perfect market integration. Finally, Thailand emerges as the potential market leader in all wavelet scales except one, which is led by India. The study has important implications for international diversification of a single-asset (gold) portfolio.

Wavelet packets for multi- and hyper-spectral imagery

NASA Astrophysics Data System (ADS)

Benedetto, J. J.; Czaja, W.; Ehler, M.; Flake, C.; Hirn, M.

2010-01-01

State of the art dimension reduction and classification schemes in multi- and hyper-spectral imaging rely primarily on the information contained in the spectral component. To better capture the joint spatial and spectral data distribution we combine the Wavelet Packet Transform with the linear dimension reduction method of Principal Component Analysis. Each spectral band is decomposed by means of the Wavelet Packet Transform and we consider a joint entropy across all the spectral bands as a tool to exploit the spatial information. Dimension reduction is then applied to the Wavelet Packets coefficients. We present examples of this technique for hyper-spectral satellite imaging. We also investigate the role of various shrinkage techniques to model non-linearity in our approach.

Wavelet Filtering to Reduce Conservatism in Aeroservoelastic Robust Stability Margins

NASA Technical Reports Server (NTRS)

Brenner, Marty; Lind, Rick

1998-01-01

Wavelet analysis for filtering and system identification was used to improve the estimation of aeroservoelastic stability margins. The conservatism of the robust stability margins was reduced with parametric and nonparametric time-frequency analysis of flight data in the model validation process. Nonparametric wavelet processing of data was used to reduce the effects of external desirableness and unmodeled dynamics. Parametric estimates of modal stability were also extracted using the wavelet transform. Computation of robust stability margins for stability boundary prediction depends on uncertainty descriptions derived from the data for model validation. F-18 high Alpha Research Vehicle aeroservoelastic flight test data demonstrated improved robust stability prediction by extension of the stability boundary beyond the flight regime.

Numerical solution of the Black-Scholes equation using cubic spline wavelets

NASA Astrophysics Data System (ADS)

Černá, Dana

2016-12-01

The Black-Scholes equation is used in financial mathematics for computation of market values of options at a given time. We use the θ-scheme for time discretization and an adaptive scheme based on wavelets for discretization on the given time level. Advantages of the proposed method are small number of degrees of freedom, high-order accuracy with respect to variables representing prices and relatively small number of iterations needed to resolve the problem with a desired accuracy. We use several cubic spline wavelet and multi-wavelet bases and discuss their advantages and disadvantages. We also compare an isotropic and anisotropic approach. Numerical experiments are presented for the two-dimensional Black-Scholes equation.

Phase synchronization based on a Dual-Tree Complex Wavelet Transform

NASA Astrophysics Data System (ADS)

Ferreira, Maria Teodora; Domingues, Margarete Oliveira; Macau, Elbert E. N.

2016-11-01

In this work, we show the applicability of our Discrete Complex Wavelet Approach (DCWA) to verify the phenomenon of phase synchronization transition in two coupled chaotic Lorenz systems. DCWA is based on the phase assignment from complex wavelet coefficients obtained by using a Dual-Tree Complex Wavelet Transform (DT-CWT). We analyzed two coupled chaotic Lorenz systems, aiming to detect the transition from non-phase synchronization to phase synchronization. In addition, we check how good is the method in detecting periods of 2π phase-slips. In all experiments, DCWA is compared with classical phase detection methods such as the ones based on arctangent and Hilbert transform showing a much better performance.

Automatic diagnosis of abnormal macula in retinal optical coherence tomography images using wavelet-based convolutional neural network features and random forests classifier

NASA Astrophysics Data System (ADS)

Rasti, Reza; Mehridehnavi, Alireza; Rabbani, Hossein; Hajizadeh, Fedra

2018-03-01

The present research intends to propose a fully automatic algorithm for the classification of three-dimensional (3-D) optical coherence tomography (OCT) scans of patients suffering from abnormal macula from normal candidates. The method proposed does not require any denoising, segmentation, retinal alignment processes to assess the intraretinal layers, as well as abnormalities or lesion structures. To classify abnormal cases from the control group, a two-stage scheme was utilized, which consists of automatic subsystems for adaptive feature learning and diagnostic scoring. In the first stage, a wavelet-based convolutional neural network (CNN) model was introduced and exploited to generate B-scan representative CNN codes in the spatial-frequency domain, and the cumulative features of 3-D volumes were extracted. In the second stage, the presence of abnormalities in 3-D OCTs was scored over the extracted features. Two different retinal SD-OCT datasets are used for evaluation of the algorithm based on the unbiased fivefold cross-validation (CV) approach. The first set constitutes 3-D OCT images of 30 normal subjects and 30 diabetic macular edema (DME) patients captured from the Topcon device. The second publicly available set consists of 45 subjects with a distribution of 15 patients in age-related macular degeneration, DME, and normal classes from the Heidelberg device. With the application of the algorithm on overall OCT volumes and 10 repetitions of the fivefold CV, the proposed scheme obtained an average precision of 99.33% on dataset1 as a two-class classification problem and 98.67% on dataset2 as a three-class classification task.

Wavelet analysis of near-inertial currents at the East Flower Garden Bank

NASA Astrophysics Data System (ADS)

Teague, W. J.; Wijesekera, H. W.; Jarosz, E.; Lugo-Fernández, A.; Hallock, Z. R.

2014-10-01

Near-inertial currents (NICs) often dominate the mean circulation at the East Flower Garden Bank (EFGB), part of the Flower Garden Banks National Marine Sanctuary. The EFGB, one of several submerged coral reefs, is located in the northwestern Gulf of Mexico, about 190 km southeast of Galveston, Texas. The bank is about 6 km wide in the east-west direction and rises to within about 20 m from the surface. NICs near the EFGB are described using current data from 5 acoustic Doppler current profilers that were moored at the edges of the bank and on top of the bank for about a year. A wavelet analysis was used in order to better describe the nonstationarity of the NICs. NICs were strongest during spring and summer due to their near resonant response with sea breeze and the shallowness of the mixed layer, and exhibited a first-baroclinic-mode vertical structure. NICS were generally larger near the surface and extended to the bottom on the west side of the EFGB but only to within about 20 m of the bottom on the eastern side of the bank. NIC ellipses were nearly circular and rotated clockwise above the top of the EFGB but became flatter and aligned with the bathymetry with increasing depth; occasionally, on the eastern side of the bank, the NIC vectors rotated counterclockwise due to probable effects of lee vortices arising from the mean flow interacting with the bank. Most energy input by the wind at the surface was likely transferred downward through divergence of the meridional flow against the coastal boundary. The inertial currents were at times more energetic than the mean flow, and often accounted for more than 50% of the total current energy.

Automatic diagnosis of abnormal macula in retinal optical coherence tomography images using wavelet-based convolutional neural network features and random forests classifier.

PubMed

Rasti, Reza; Mehridehnavi, Alireza; Rabbani, Hossein; Hajizadeh, Fedra

2018-03-01

The present research intends to propose a fully automatic algorithm for the classification of three-dimensional (3-D) optical coherence tomography (OCT) scans of patients suffering from abnormal macula from normal candidates. The method proposed does not require any denoising, segmentation, retinal alignment processes to assess the intraretinal layers, as well as abnormalities or lesion structures. To classify abnormal cases from the control group, a two-stage scheme was utilized, which consists of automatic subsystems for adaptive feature learning and diagnostic scoring. In the first stage, a wavelet-based convolutional neural network (CNN) model was introduced and exploited to generate B-scan representative CNN codes in the spatial-frequency domain, and the cumulative features of 3-D volumes were extracted. In the second stage, the presence of abnormalities in 3-D OCTs was scored over the extracted features. Two different retinal SD-OCT datasets are used for evaluation of the algorithm based on the unbiased fivefold cross-validation (CV) approach. The first set constitutes 3-D OCT images of 30 normal subjects and 30 diabetic macular edema (DME) patients captured from the Topcon device. The second publicly available set consists of 45 subjects with a distribution of 15 patients in age-related macular degeneration, DME, and normal classes from the Heidelberg device. With the application of the algorithm on overall OCT volumes and 10 repetitions of the fivefold CV, the proposed scheme obtained an average precision of 99.33% on dataset1 as a two-class classification problem and 98.67% on dataset2 as a three-class classification task. (2018) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE).

Bimodal Biometric Verification Using the Fusion of Palmprint and Infrared Palm-Dorsum Vein Images

PubMed Central

Lin, Chih-Lung; Wang, Shih-Hung; Cheng, Hsu-Yung; Fan, Kuo-Chin; Hsu, Wei-Lieh; Lai, Chin-Rong

2015-01-01

In this paper, we present a reliable and robust biometric verification method based on bimodal physiological characteristics of palms, including the palmprint and palm-dorsum vein patterns. The proposed method consists of five steps: (1) automatically aligning and cropping the same region of interest from different palm or palm-dorsum images; (2) applying the digital wavelet transform and inverse wavelet transform to fuse palmprint and vein pattern images; (3) extracting the line-like features (LLFs) from the fused image; (4) obtaining multiresolution representations of the LLFs by using a multiresolution filter; and (5) using a support vector machine to verify the multiresolution representations of the LLFs. The proposed method possesses four advantages: first, both modal images are captured in peg-free scenarios to improve the user-friendliness of the verification device. Second, palmprint and vein pattern images are captured using a low-resolution digital scanner and infrared (IR) camera. The use of low-resolution images results in a smaller database. In addition, the vein pattern images are captured through the invisible IR spectrum, which improves antispoofing. Third, since the physiological characteristics of palmprint and vein pattern images are different, a hybrid fusing rule can be introduced to fuse the decomposition coefficients of different bands. The proposed method fuses decomposition coefficients at different decomposed levels, with different image sizes, captured from different sensor devices. Finally, the proposed method operates automatically and hence no parameters need to be set manually. Three thousand palmprint images and 3000 vein pattern images were collected from 100 volunteers to verify the validity of the proposed method. The results show a false rejection rate of 1.20% and a false acceptance rate of 1.56%. It demonstrates the validity and excellent performance of our proposed method comparing to other methods. PMID:26703596

Bimodal Biometric Verification Using the Fusion of Palmprint and Infrared Palm-Dorsum Vein Images.

PubMed

Lin, Chih-Lung; Wang, Shih-Hung; Cheng, Hsu-Yung; Fan, Kuo-Chin; Hsu, Wei-Lieh; Lai, Chin-Rong

2015-12-12

In this paper, we present a reliable and robust biometric verification method based on bimodal physiological characteristics of palms, including the palmprint and palm-dorsum vein patterns. The proposed method consists of five steps: (1) automatically aligning and cropping the same region of interest from different palm or palm-dorsum images; (2) applying the digital wavelet transform and inverse wavelet transform to fuse palmprint and vein pattern images; (3) extracting the line-like features (LLFs) from the fused image; (4) obtaining multiresolution representations of the LLFs by using a multiresolution filter; and (5) using a support vector machine to verify the multiresolution representations of the LLFs. The proposed method possesses four advantages: first, both modal images are captured in peg-free scenarios to improve the user-friendliness of the verification device. Second, palmprint and vein pattern images are captured using a low-resolution digital scanner and infrared (IR) camera. The use of low-resolution images results in a smaller database. In addition, the vein pattern images are captured through the invisible IR spectrum, which improves antispoofing. Third, since the physiological characteristics of palmprint and vein pattern images are different, a hybrid fusing rule can be introduced to fuse the decomposition coefficients of different bands. The proposed method fuses decomposition coefficients at different decomposed levels, with different image sizes, captured from different sensor devices. Finally, the proposed method operates automatically and hence no parameters need to be set manually. Three thousand palmprint images and 3000 vein pattern images were collected from 100 volunteers to verify the validity of the proposed method. The results show a false rejection rate of 1.20% and a false acceptance rate of 1.56%. It demonstrates the validity and excellent performance of our proposed method comparing to other methods.

Design of tree structured matched wavelet for HRV signals of menstrual cycle.

PubMed

Rawal, Kirti; Saini, B S; Saini, Indu

2016-07-01

An algorithm is presented for designing a new class of wavelets matched to the Heart Rate Variability (HRV) signals of the menstrual cycle. The proposed wavelets are used to find HRV variations between phases of menstrual cycle. The method finds the signal matching characteristics by minimising the shape feature error using Least Mean Square method. The proposed filter banks are used for the decomposition of the HRV signal. For reconstructing the original signal, the tree structure method is used. In this approach, decomposed sub-bands are selected based upon their energy in each sub-band. Thus, instead of using all sub-bands for reconstruction, sub-bands having high energy content are used for the reconstruction of signal. Thus, a lower number of sub-bands are required for reconstruction of the original signal which shows the effectiveness of newly created filter coefficients. Results show that proposed wavelets are able to differentiate HRV variations between phases of the menstrual cycle accurately than standard wavelets.

Operational Safety Assessment of Turbo Generators with Wavelet Rényi Entropy from Sensor-Dependent Vibration Signals

PubMed Central

Zhang, Xiaoli; Wang, Baojian; Chen, Xuefeng

2015-01-01

With the rapid development of sensor technology, various professional sensors are installed on modern machinery to monitor operational processes and assure operational safety, which play an important role in industry and society. In this work a new operational safety assessment approach with wavelet Rényi entropy utilizing sensor-dependent vibration signals is proposed. On the basis of a professional sensor and the corresponding system, sensor-dependent vibration signals are acquired and analyzed by a second generation wavelet package, which reflects time-varying operational characteristic of individual machinery. Derived from the sensor-dependent signals’ wavelet energy distribution over the observed signal frequency range, wavelet Rényi entropy is defined to compute the operational uncertainty of a turbo generator, which is then associated with its operational safety degree. The proposed method is applied in a 50 MW turbo generator, whereupon it is proved to be reasonable and effective for operation and maintenance. PMID:25894934

Application of Time-Frequency Domain Transform to Three-Dimensional Interpolation of Medical Images.

PubMed

Lv, Shengqing; Chen, Yimin; Li, Zeyu; Lu, Jiahui; Gao, Mingke; Lu, Rongrong

2017-11-01

Medical image three-dimensional (3D) interpolation is an important means to improve the image effect in 3D reconstruction. In image processing, the time-frequency domain transform is an efficient method. In this article, several time-frequency domain transform methods are applied and compared in 3D interpolation. And a Sobel edge detection and 3D matching interpolation method based on wavelet transform is proposed. We combine wavelet transform, traditional matching interpolation methods, and Sobel edge detection together in our algorithm. What is more, the characteristics of wavelet transform and Sobel operator are used. They deal with the sub-images of wavelet decomposition separately. Sobel edge detection 3D matching interpolation method is used in low-frequency sub-images under the circumstances of ensuring high frequency undistorted. Through wavelet reconstruction, it can get the target interpolation image. In this article, we make 3D interpolation of the real computed tomography (CT) images. Compared with other interpolation methods, our proposed method is verified to be effective and superior.

Damage Identification in Beam Structure using Spatial Continuous Wavelet Transform

NASA Astrophysics Data System (ADS)

Janeliukstis, R.; Rucevskis, S.; Wesolowski, M.; Kovalovs, A.; Chate, A.

2015-11-01

In this paper the applicability of spatial continuous wavelet transform (CWT) technique for damage identification in the beam structure is analyzed by application of different types of wavelet functions and scaling factors. The proposed method uses exclusively mode shape data from the damaged structure. To examine limitations of the method and to ascertain its sensitivity to noisy experimental data, several sets of simulated data are analyzed. Simulated test cases include numerical mode shapes corrupted by different levels of random noise as well as mode shapes with different number of measurement points used for wavelet transform. A broad comparison of ability of different wavelet functions to detect and locate damage in beam structure is given. Effectiveness and robustness of the proposed algorithms are demonstrated experimentally on two aluminum beams containing single mill-cut damage. The modal frequencies and the corresponding mode shapes are obtained via finite element models for numerical simulations and by using a scanning laser vibrometer with PZT actuator as vibration excitation source for the experimental study.

Simultaneous spectrophotometric determination of four metals by two kinds of partial least squares methods

NASA Astrophysics Data System (ADS)

Gao, Ling; Ren, Shouxin

2005-10-01

Simultaneous determination of Ni(II), Cd(II), Cu(II) and Zn(II) was studied by two methods, kernel partial least squares (KPLS) and wavelet packet transform partial least squares (WPTPLS), with xylenol orange and cetyltrimethyl ammonium bromide as reagents in the medium pH = 9.22 borax-hydrochloric acid buffer solution. Two programs, PKPLS and PWPTPLS, were designed to perform the calculations. Data reduction was performed using kernel matrices and wavelet packet transform, respectively. In the KPLS method, the size of the kernel matrix is only dependent on the number of samples, thus the method was suitable for the data matrix with many wavelengths and fewer samples. Wavelet packet representations of signals provide a local time-frequency description, thus in the wavelet packet domain, the quality of the noise removal can be improved. In the WPTPLS by optimization, wavelet function and decomposition level were selected as Daubeches 12 and 5, respectively. Experimental results showed both methods to be successful even where there was severe overlap of spectra.

Onboard image compression schemes for modular airborne imaging spectrometer (MAIS) based on wavelet transform

NASA Astrophysics Data System (ADS)

Zhu, Zhenyu; Wang, Jianyu

1996-11-01

In this paper, two compression schemes are presented to meet the urgent needs of compressing the huge volume and high data rate of imaging spectrometer images. According to the multidimensional feature of the images and the high fidelity requirement of the reconstruction, both schemes were devised to exploit the high redundancy in both spatial and spectral dimension based on the mature wavelet transform technology. Wavelet transform was applied here in two ways: First, with the spatial wavelet transform and the spectral DPCM decorrelation, a ratio up to 84.3 with PSNR > 48db's near-lossless result was attained. This is based ont he fact that the edge structure among all the spectral bands are similar while WT has higher resolution in high frequency components. Secondly, with the wavelet's high efficiency in processing the 'wideband transient' signals, it was used to transform the raw nonstationary signals in the spectral dimension. A good result was also attained.

Block-based scalable wavelet image codec

NASA Astrophysics Data System (ADS)

Bao, Yiliang; Kuo, C.-C. Jay

1999-10-01

This paper presents a high performance block-based wavelet image coder which is designed to be of very low implementational complexity yet with rich features. In this image coder, the Dual-Sliding Wavelet Transform (DSWT) is first applied to image data to generate wavelet coefficients in fixed-size blocks. Here, a block only consists of wavelet coefficients from a single subband. The coefficient blocks are directly coded with the Low Complexity Binary Description (LCBiD) coefficient coding algorithm. Each block is encoded using binary context-based bitplane coding. No parent-child correlation is exploited in the coding process. There is also no intermediate buffering needed in between DSWT and LCBiD. The compressed bit stream generated by the proposed coder is both SNR and resolution scalable, as well as highly resilient to transmission errors. Both DSWT and LCBiD process the data in blocks whose size is independent of the size of the original image. This gives more flexibility in the implementation. The codec has a very good coding performance even the block size is (16,16).

Analysis of embolic signals with directional dual tree rational dilation wavelet transform.

PubMed

Serbes, Gorkem; Aydin, Nizamettin

2016-08-01

The dyadic discrete wavelet transform (dyadic-DWT), which is based on fixed integer sampling factor, has been used before for processing piecewise smooth biomedical signals. However, the dyadic-DWT has poor frequency resolution due to the low-oscillatory nature of its wavelet bases and therefore, it is less effective in processing embolic signals (ESs). To process ESs more effectively, a wavelet transform having better frequency resolution than the dyadic-DWT is needed. Therefore, in this study two ESs, containing micro-emboli and artifact waveforms, are analyzed with the Directional Dual Tree Rational-Dilation Wavelet Transform (DDT-RADWT). The DDT-RADWT, which can be directly applied to quadrature signals, is based on rational dilation factors and has adjustable frequency resolution. The analyses are done for both low and high Q-factors. It is proved that, when high Q-factor filters are employed in the DDT-RADWT, clearer representations of ESs can be attained in decomposed sub-bands and artifacts can be successfully separated.

Simultaneous compression and encryption for secure real-time secure transmission of sensitive video transmission

NASA Astrophysics Data System (ADS)

Al-Hayani, Nazar; Al-Jawad, Naseer; Jassim, Sabah A.

2014-05-01

Video compression and encryption became very essential in a secured real time video transmission. Applying both techniques simultaneously is one of the challenges where the size and the quality are important in multimedia transmission. In this paper we proposed a new technique for video compression and encryption. Both encryption and compression are based on edges extracted from the high frequency sub-bands of wavelet decomposition. The compression algorithm based on hybrid of: discrete wavelet transforms, discrete cosine transform, vector quantization, wavelet based edge detection, and phase sensing. The compression encoding algorithm treats the video reference and non-reference frames in two different ways. The encryption algorithm utilized A5 cipher combined with chaotic logistic map to encrypt the significant parameters and wavelet coefficients. Both algorithms can be applied simultaneously after applying the discrete wavelet transform on each individual frame. Experimental results show that the proposed algorithms have the following features: high compression, acceptable quality, and resistance to the statistical and bruteforce attack with low computational processing.

Spectral information enhancement using wavelet-based iterative filtering for in vivo gamma spectrometry.

PubMed

Paul, Sabyasachi; Sarkar, P K

2013-04-01

Use of wavelet transformation in stationary signal processing has been demonstrated for denoising the measured spectra and characterisation of radionuclides in the in vivo monitoring analysis, where difficulties arise due to very low activity level to be estimated in biological systems. The large statistical fluctuations often make the identification of characteristic gammas from radionuclides highly uncertain, particularly when interferences from progenies are also present. A new wavelet-based noise filtering methodology has been developed for better detection of gamma peaks in noisy data. This sequential, iterative filtering method uses the wavelet multi-resolution approach for noise rejection and an inverse transform after soft 'thresholding' over the generated coefficients. Analyses of in vivo monitoring data of (235)U and (238)U were carried out using this method without disturbing the peak position and amplitude while achieving a 3-fold improvement in the signal-to-noise ratio, compared with the original measured spectrum. When compared with other data-filtering techniques, the wavelet-based method shows the best results.

An Automated Parallel Image Registration Technique Based on the Correlation of Wavelet Features

NASA Technical Reports Server (NTRS)

LeMoigne, Jacqueline; Campbell, William J.; Cromp, Robert F.; Zukor, Dorothy (Technical Monitor)

2001-01-01

With the increasing importance of multiple platform/multiple remote sensing missions, fast and automatic integration of digital data from disparate sources has become critical to the success of these endeavors. Our work utilizes maxima of wavelet coefficients to form the basic features of a correlation-based automatic registration algorithm. Our wavelet-based registration algorithm is tested successfully with data from the National Oceanic and Atmospheric Administration (NOAA) Advanced Very High Resolution Radiometer (AVHRR) and the Landsat/Thematic Mapper(TM), which differ by translation and/or rotation. By the choice of high-frequency wavelet features, this method is similar to an edge-based correlation method, but by exploiting the multi-resolution nature of a wavelet decomposition, our method achieves higher computational speeds for comparable accuracies. This algorithm has been implemented on a Single Instruction Multiple Data (SIMD) massively parallel computer, the MasPar MP-2, as well as on the CrayT3D, the Cray T3E and a Beowulf cluster of Pentium workstations.

High-resolution time-frequency representation of EEG data using multi-scale wavelets

NASA Astrophysics Data System (ADS)

Li, Yang; Cui, Wei-Gang; Luo, Mei-Lin; Li, Ke; Wang, Lina

2017-09-01

An efficient time-varying autoregressive (TVAR) modelling scheme that expands the time-varying parameters onto the multi-scale wavelet basis functions is presented for modelling nonstationary signals and with applications to time-frequency analysis (TFA) of electroencephalogram (EEG) signals. In the new parametric modelling framework, the time-dependent parameters of the TVAR model are locally represented by using a novel multi-scale wavelet decomposition scheme, which can allow the capability to capture the smooth trends as well as track the abrupt changes of time-varying parameters simultaneously. A forward orthogonal least square (FOLS) algorithm aided by mutual information criteria are then applied for sparse model term selection and parameter estimation. Two simulation examples illustrate that the performance of the proposed multi-scale wavelet basis functions outperforms the only single-scale wavelet basis functions or Kalman filter algorithm for many nonstationary processes. Furthermore, an application of the proposed method to a real EEG signal demonstrates the new approach can provide highly time-dependent spectral resolution capability.

Doppler radar fall activity detection using the wavelet transform.

PubMed

Su, Bo Yu; Ho, K C; Rantz, Marilyn J; Skubic, Marjorie

2015-03-01

We propose in this paper the use of Wavelet transform (WT) to detect human falls using a ceiling mounted Doppler range control radar. The radar senses any motions from falls as well as nonfalls due to the Doppler effect. The WT is very effective in distinguishing the falls from other activities, making it a promising technique for radar fall detection in nonobtrusive inhome elder care applications. The proposed radar fall detector consists of two stages. The prescreen stage uses the coefficients of wavelet decomposition at a given scale to identify the time locations in which fall activities may have occurred. The classification stage extracts the time-frequency content from the wavelet coefficients at many scales to form a feature vector for fall versus nonfall classification. The selection of different wavelet functions is examined to achieve better performance. Experimental results using the data from the laboratory and real inhome environments validate the promising and robust performance of the proposed detector.

Multiscale wavelet representations for mammographic feature analysis

NASA Astrophysics Data System (ADS)

Laine, Andrew F.; Song, Shuwu

1992-12-01

This paper introduces a novel approach for accomplishing mammographic feature analysis through multiresolution representations. We show that efficient (nonredundant) representations may be identified from digital mammography and used to enhance specific mammographic features within a continuum of scale space. The multiresolution decomposition of wavelet transforms provides a natural hierarchy in which to embed an interactive paradigm for accomplishing scale space feature analysis. Choosing wavelets (or analyzing functions) that are simultaneously localized in both space and frequency, results in a powerful methodology for image analysis. Multiresolution and orientation selectivity, known biological mechanisms in primate vision, are ingrained in wavelet representations and inspire the techniques presented in this paper. Our approach includes local analysis of complete multiscale representations. Mammograms are reconstructed from wavelet coefficients, enhanced by linear, exponential and constant weight functions localized in scale space. By improving the visualization of breast pathology we can improve the changes of early detection of breast cancers (improve quality) while requiring less time to evaluate mammograms for most patients (lower costs).

Wavelet energy-guided level set-based active contour: a segmentation method to segment highly similar regions.

PubMed

Achuthan, Anusha; Rajeswari, Mandava; Ramachandram, Dhanesh; Aziz, Mohd Ezane; Shuaib, Ibrahim Lutfi

2010-07-01

This paper introduces an approach to perform segmentation of regions in computed tomography (CT) images that exhibit intra-region intensity variations and at the same time have similar intensity distributions with surrounding/adjacent regions. In this work, we adapt a feature computed from wavelet transform called wavelet energy to represent the region information. The wavelet energy is embedded into a level set model to formulate the segmentation model called wavelet energy-guided level set-based active contour (WELSAC). The WELSAC model is evaluated using several synthetic and CT images focusing on tumour cases, which contain regions demonstrating the characteristics of intra-region intensity variations and having high similarity in intensity distributions with the adjacent regions. The obtained results show that the proposed WELSAC model is able to segment regions of interest in close correspondence with the manual delineation provided by the medical experts and to provide a solution for tumour detection. Copyright 2010 Elsevier Ltd. All rights reserved.

Wavelet transformation to determine impedance spectra of lithium-ion rechargeable battery

NASA Astrophysics Data System (ADS)

Hoshi, Yoshinao; Yakabe, Natsuki; Isobe, Koichiro; Saito, Toshiki; Shitanda, Isao; Itagaki, Masayuki

2016-05-01

A new analytical method is proposed to determine the electrochemical impedance of lithium-ion rechargeable batteries (LIRB) from time domain data by wavelet transformation (WT). The WT is a waveform analysis method that can transform data in the time domain to the frequency domain while retaining time information. In this transformation, the frequency domain data are obtained by the convolution integral of a mother wavelet and original time domain data. A complex Morlet mother wavelet (CMMW) is used to obtain the complex number data in the frequency domain. The CMMW is expressed by combining a Gaussian function and sinusoidal term. The theory to select a set of suitable conditions for variables and constants related to the CMMW, i.e., band, scale, and time parameters, is established by determining impedance spectra from wavelet coefficients using input voltage to the equivalent circuit and the output current. The impedance spectrum of LIRB determined by WT agrees well with that measured using a frequency response analyzer.

Wavelet-domain de-noising technique for THz pulsed spectroscopy

NASA Astrophysics Data System (ADS)

Chernomyrdin, Nikita V.; Zaytsev, Kirill I.; Gavdush, Arsenii A.; Fokina, Irina N.; Karasik, Valeriy E.; Reshetov, Igor V.; Kudrin, Konstantin G.; Nosov, Pavel A.; Yurchenko, Stanislav O.

2014-09-01

De-noising of terahertz (THz) pulsed spectroscopy (TPS) data is an essential problem, since a noise in the TPS system data prevents correct reconstruction of the sample spectral dielectric properties and to perform the sample internal structure studying. There are certain regions in TPS signal Fourier spectrum, where Fourier-domain signal-to-noise ratio is relatively small. Effective de-noising might potentially expand the range of spectrometer spectral sensitivity and reduce the time of waveform registration, which is an essential problem for biomedical applications of TPS. In this work, it is shown how the recent progress in signal processing in wavelet-domain could be used for TPS waveforms de-noising. It demonstrates the ability to perform effective de-noising of TPS data using the algorithm of the Fast Wavelet Transform (FWT). The results of the optimal wavelet basis selection and wavelet-domain thresholding technique selection are reported. Developed technique is implemented for reconstruction of in vivo healthy and deseased skin samplesspectral characteristics at THz frequency range.

An adaptive morphological gradient lifting wavelet for detecting bearing defects

NASA Astrophysics Data System (ADS)

Li, Bing; Zhang, Pei-lin; Mi, Shuang-shan; Hu, Ren-xi; Liu, Dong-sheng

2012-05-01

This paper presents a novel wavelet decomposition scheme, named adaptive morphological gradient lifting wavelet (AMGLW), for detecting bearing defects. The adaptability of the AMGLW consists in that the scheme can select between two filters, mean the average filter and morphological gradient filter, to update the approximation signal based on the local gradient of the analyzed signal. Both a simulated signal and vibration signals acquired from bearing are employed to evaluate and compare the proposed AMGLW scheme with the traditional linear wavelet transform (LWT) and another adaptive lifting wavelet (ALW) developed in literature. Experimental results reveal that the AMGLW outperforms the LW and ALW obviously for detecting bearing defects. The impulsive components can be enhanced and the noise can be depressed simultaneously by the presented AMGLW scheme. Thus the fault characteristic frequencies of bearing can be clearly identified. Furthermore, the AMGLW gets an advantage over LW in computation efficiency. It is quite suitable for online condition monitoring of bearings and other rotating machineries.

Running wavelet archetype aids the determination of heart rate from the video photoplethysmogram during motion.

PubMed

Addison, Paul S; Foo, David M H; Jacquel, Dominique

2017-07-01

The extraction of heart rate from a video-based biosignal during motion using a novel wavelet-based ensemble averaging method is described. Running Wavelet Archetyping (RWA) allows for the enhanced extraction of pulse information from the time-frequency representation, from which a video-based heart rate (HRvid) can be derived. This compares favorably to a reference heart rate derived from a pulse oximeter.

Noncoding sequence classification based on wavelet transform analysis: part II

NASA Astrophysics Data System (ADS)

Paredes, O.; Strojnik, M.; Romo-Vázquez, R.; Vélez-Pérez, H.; Ranta, R.; Garcia-Torales, G.; Scholl, M. K.; Morales, J. A.

2017-09-01

DNA sequences in human genome can be divided into the coding and noncoding ones. We hypothesize that the characteristic periodicities of the noncoding sequences are related to their function. We describe the procedure to identify these characteristic periodicities using the wavelet analysis. Our results show that three groups of noncoding sequences, each one with different biological function, may be differentiated by their wavelet coefficients within specific frequency range.

Adaptive Filtering in the Wavelet Transform Domain Via Genetic Algorithms

DTIC Science & Technology

2004-08-01

inverse transform process. 2. BACKGROUND The image processing research conducted at the AFRL/IFTA Reconfigurable Computing Laboratory has been...coefficients from the wavelet domain back into the original signal domain. In other words, the inverse transform produces the original signal x(t) from the...coefficients for an inverse wavelet transform, such that the MSE of images reconstructed by this inverse transform is significantly less than the mean squared

Shearlet Features for Registration of Remotely Sensed Multitemporal Images

NASA Technical Reports Server (NTRS)

Murphy, James M.; Le Moigne, Jacqueline

2015-01-01

We investigate the role of anisotropic feature extraction methods for automatic image registration of remotely sensed multitemporal images. Building on the classical use of wavelets in image registration, we develop an algorithm based on shearlets, a mathematical generalization of wavelets that offers increased directional sensitivity. Initial experimental results on LANDSAT images are presented, which indicate superior performance of the shearlet algorithm when compared to classical wavelet algorithms.

Distributed Compressive Sensing

DTIC Science & Technology

2009-01-01

example, smooth signals are sparse in the Fourier basis, and piecewise smooth signals are sparse in a wavelet basis [8]; the commercial coding standards MP3...including wavelets [8], Gabor bases [8], curvelets [35], etc., are widely used for representation and compression of natural signals, images, and...spikes and the sine waves of a Fourier basis, or the Fourier basis and wavelets . Signals that are sparsely represented in frames or unions of bases can

A simple structure wavelet transform circuit employing function link neural networks and SI filters

NASA Astrophysics Data System (ADS)

Mu, Li; Yigang, He

2016-12-01

Signal processing by means of analog circuits offers advantages from a power consumption viewpoint. Implementing wavelet transform (WT) using analog circuits is of great interest when low-power consumption becomes an important issue. In this article, a novel simple structure WT circuit in analog domain is presented by employing functional link neural network (FLNN) and switched-current (SI) filters. First, the wavelet base is approximated using FLNN algorithms for giving a filter transfer function that is suitable for simple structure WT circuit implementation. Next, the WT circuit is constructed with the wavelet filter bank, whose impulse response is the approximated wavelet and its dilations. The filter design that follows is based on a follow-the-leader feedback (FLF) structure with multiple output bilinear SI integrators and current mirrors as the main building blocks. SI filter is well suited for this application since the dilation constant across different scales of the transform can be precisely implemented and controlled by the clock frequency of the circuit with the same system architecture. Finally, to illustrate the design procedure, a seventh-order FLNN-approximated Gaussian wavelet is implemented as an example. Simulations have successfully verified that the designed simple structure WT circuit has low sensitivity, low-power consumption and litter effect to the imperfections.

Wavelet-linear genetic programming: A new approach for modeling monthly streamflow

NASA Astrophysics Data System (ADS)

Ravansalar, Masoud; Rajaee, Taher; Kisi, Ozgur

2017-06-01

The streamflows are important and effective factors in stream ecosystems and its accurate prediction is an essential and important issue in water resources and environmental engineering systems. A hybrid wavelet-linear genetic programming (WLGP) model, which includes a discrete wavelet transform (DWT) and a linear genetic programming (LGP) to predict the monthly streamflow (Q) in two gauging stations, Pataveh and Shahmokhtar, on the Beshar River at the Yasuj, Iran were used in this study. In the proposed WLGP model, the wavelet analysis was linked to the LGP model where the original time series of streamflow were decomposed into the sub-time series comprising wavelet coefficients. The results were compared with the single LGP, artificial neural network (ANN), a hybrid wavelet-ANN (WANN) and Multi Linear Regression (MLR) models. The comparisons were done by some of the commonly utilized relevant physical statistics. The Nash coefficients (E) were found as 0.877 and 0.817 for the WLGP model, for the Pataveh and Shahmokhtar stations, respectively. The comparison of the results showed that the WLGP model could significantly increase the streamflow prediction accuracy in both stations. Since, the results demonstrate a closer approximation of the peak streamflow values by the WLGP model, this model could be utilized for the simulation of cumulative streamflow data prediction in one month ahead.

Estimation of Handgrip Force from SEMG Based on Wavelet Scale Selection.

PubMed

Wang, Kai; Zhang, Xianmin; Ota, Jun; Huang, Yanjiang

2018-02-24

This paper proposes a nonlinear correlation-based wavelet scale selection technology to select the effective wavelet scales for the estimation of handgrip force from surface electromyograms (SEMG). The SEMG signal corresponding to gripping force was collected from extensor and flexor forearm muscles during the force-varying analysis task. We performed a computational sensitivity analysis on the initial nonlinear SEMG-handgrip force model. To explore the nonlinear correlation between ten wavelet scales and handgrip force, a large-scale iteration based on the Monte Carlo simulation was conducted. To choose a suitable combination of scales, we proposed a rule to combine wavelet scales based on the sensitivity of each scale and selected the appropriate combination of wavelet scales based on sequence combination analysis (SCA). The results of SCA indicated that the scale combination VI is suitable for estimating force from the extensors and the combination V is suitable for the flexors. The proposed method was compared to two former methods through prolonged static and force-varying contraction tasks. The experiment results showed that the root mean square errors derived by the proposed method for both static and force-varying contraction tasks were less than 20%. The accuracy and robustness of the handgrip force derived by the proposed method is better than that obtained by the former methods.

An arrhythmia classification algorithm using a dedicated wavelet adapted to different subjects.

PubMed

Kim, Jinkwon; Min, Se Dong; Lee, Myoungho

2011-06-27

Numerous studies have been conducted regarding a heartbeat classification algorithm over the past several decades. However, many algorithms have also been studied to acquire robust performance, as biosignals have a large amount of variation among individuals. Various methods have been proposed to reduce the differences coming from personal characteristics, but these expand the differences caused by arrhythmia. In this paper, an arrhythmia classification algorithm using a dedicated wavelet adapted to individual subjects is proposed. We reduced the performance variation using dedicated wavelets, as in the ECG morphologies of the subjects. The proposed algorithm utilizes morphological filtering and a continuous wavelet transform with a dedicated wavelet. A principal component analysis and linear discriminant analysis were utilized to compress the morphological data transformed by the dedicated wavelets. An extreme learning machine was used as a classifier in the proposed algorithm. A performance evaluation was conducted with the MIT-BIH arrhythmia database. The results showed a high sensitivity of 97.51%, specificity of 85.07%, accuracy of 97.94%, and a positive predictive value of 97.26%. The proposed algorithm achieves better accuracy than other state-of-the-art algorithms with no intrasubject between the training and evaluation datasets. And it significantly reduces the amount of intervention needed by physicians.

An efficient coding algorithm for the compression of ECG signals using the wavelet transform.

PubMed

Rajoub, Bashar A

2002-04-01

A wavelet-based electrocardiogram (ECG) data compression algorithm is proposed in this paper. The ECG signal is first preprocessed, the discrete wavelet transform (DWT) is then applied to the preprocessed signal. Preprocessing guarantees that the magnitudes of the wavelet coefficients be less than one, and reduces the reconstruction errors near both ends of the compressed signal. The DWT coefficients are divided into three groups, each group is thresholded using a threshold based on a desired energy packing efficiency. A binary significance map is then generated by scanning the wavelet decomposition coefficients and outputting a binary one if the scanned coefficient is significant, and a binary zero if it is insignificant. Compression is achieved by 1) using a variable length code based on run length encoding to compress the significance map and 2) using direct binary representation for representing the significant coefficients. The ability of the coding algorithm to compress ECG signals is investigated, the results were obtained by compressing and decompressing the test signals. The proposed algorithm is compared with direct-based and wavelet-based compression algorithms and showed superior performance. A compression ratio of 24:1 was achieved for MIT-BIH record 117 with a percent root mean square difference as low as 1.08%.

An arrhythmia classification algorithm using a dedicated wavelet adapted to different subjects

PubMed Central

2011-01-01

Background Numerous studies have been conducted regarding a heartbeat classification algorithm over the past several decades. However, many algorithms have also been studied to acquire robust performance, as biosignals have a large amount of variation among individuals. Various methods have been proposed to reduce the differences coming from personal characteristics, but these expand the differences caused by arrhythmia. Methods In this paper, an arrhythmia classification algorithm using a dedicated wavelet adapted to individual subjects is proposed. We reduced the performance variation using dedicated wavelets, as in the ECG morphologies of the subjects. The proposed algorithm utilizes morphological filtering and a continuous wavelet transform with a dedicated wavelet. A principal component analysis and linear discriminant analysis were utilized to compress the morphological data transformed by the dedicated wavelets. An extreme learning machine was used as a classifier in the proposed algorithm. Results A performance evaluation was conducted with the MIT-BIH arrhythmia database. The results showed a high sensitivity of 97.51%, specificity of 85.07%, accuracy of 97.94%, and a positive predictive value of 97.26%. Conclusions The proposed algorithm achieves better accuracy than other state-of-the-art algorithms with no intrasubject between the training and evaluation datasets. And it significantly reduces the amount of intervention needed by physicians. PMID:21707989

Lifting wavelet method of target detection

NASA Astrophysics Data System (ADS)

Han, Jun; Zhang, Chi; Jiang, Xu; Wang, Fang; Zhang, Jin

2009-11-01

Image target recognition plays a very important role in the areas of scientific exploration, aeronautics and space-to-ground observation, photography and topographic mapping. Complex environment of the image noise, fuzzy, all kinds of interference has always been to affect the stability of recognition algorithm. In this paper, the existence of target detection in real-time, accuracy problems, as well as anti-interference ability, using lifting wavelet image target detection methods. First of all, the use of histogram equalization, the goal difference method to obtain the region, on the basis of adaptive threshold and mathematical morphology operations to deal with the elimination of the background error. Secondly, the use of multi-channel wavelet filter wavelet transform of the original image de-noising and enhancement, to overcome the general algorithm of the noise caused by the sensitive issue of reducing the rate of miscarriage of justice will be the multi-resolution characteristics of wavelet and promotion of the framework can be designed directly in the benefits of space-time region used in target detection, feature extraction of targets. The experimental results show that the design of lifting wavelet has solved the movement of the target due to the complexity of the context of the difficulties caused by testing, which can effectively suppress noise, and improve the efficiency and speed of detection.

An innovative approach for characteristic analysis and state-of-health diagnosis for a Li-ion cell based on the discrete wavelet transform

NASA Astrophysics Data System (ADS)

Kim, Jonghoon; Cho, B. H.

2014-08-01

This paper introduces an innovative approach to analyze electrochemical characteristics and state-of-health (SOH) diagnosis of a Li-ion cell based on the discrete wavelet transform (DWT). In this approach, the DWT has been applied as a powerful tool in the analysis of the discharging/charging voltage signal (DCVS) with non-stationary and transient phenomena for a Li-ion cell. Specifically, DWT-based multi-resolution analysis (MRA) is used for extracting information on the electrochemical characteristics in both time and frequency domain simultaneously. Through using the MRA with implementation of the wavelet decomposition, the information on the electrochemical characteristics of a Li-ion cell can be extracted from the DCVS over a wide frequency range. Wavelet decomposition based on the selection of the order 3 Daubechies wavelet (dB3) and scale 5 as the best wavelet function and the optimal decomposition scale is implemented. In particular, this present approach develops these investigations one step further by showing low and high frequency components (approximation component An and detail component Dn, respectively) extracted from variable Li-ion cells with different electrochemical characteristics caused by aging effect. Experimental results show the clearness of the DWT-based approach for the reliable diagnosis of the SOH for a Li-ion cell.

Wavelet-Based Signal and Image Processing for Target Recognition

NASA Astrophysics Data System (ADS)

Sherlock, Barry G.

2002-11-01

The PI visited NSWC Dahlgren, VA, for six weeks in May-June 2002 and collaborated with scientists in the G33 TEAMS facility, and with Marilyn Rudzinsky of T44 Technology and Photonic Systems Branch. During this visit the PI also presented six educational seminars to NSWC scientists on various aspects of signal processing. Several items from the grant proposal were completed, including (1) wavelet-based algorithms for interpolation of 1-d signals and 2-d images; (2) Discrete Wavelet Transform domain based algorithms for filtering of image data; (3) wavelet-based smoothing of image sequence data originally obtained for the CRITTIR (Clutter Rejection Involving Temporal Techniques in the Infra-Red) project. The PI visited the University of Stellenbosch, South Africa to collaborate with colleagues Prof. B.M. Herbst and Prof. J. du Preez on the use of wavelet image processing in conjunction with pattern recognition techniques. The University of Stellenbosch has offered the PI partial funding to support a sabbatical visit in Fall 2003, the primary purpose of which is to enable the PI to develop and enhance his expertise in Pattern Recognition. During the first year, the grant supported publication of 3 referred papers, presentation of 9 seminars and an intensive two-day course on wavelet theory. The grant supported the work of two students who functioned as research assistants.

Multiscale asymmetric orthogonal wavelet kernel for linear programming support vector learning and nonlinear dynamic systems identification.

PubMed

Lu, Zhao; Sun, Jing; Butts, Kenneth

2014-05-01

Support vector regression for approximating nonlinear dynamic systems is more delicate than the approximation of indicator functions in support vector classification, particularly for systems that involve multitudes of time scales in their sampled data. The kernel used for support vector learning determines the class of functions from which a support vector machine can draw its solution, and the choice of kernel significantly influences the performance of a support vector machine. In this paper, to bridge the gap between wavelet multiresolution analysis and kernel learning, the closed-form orthogonal wavelet is exploited to construct new multiscale asymmetric orthogonal wavelet kernels for linear programming support vector learning. The closed-form multiscale orthogonal wavelet kernel provides a systematic framework to implement multiscale kernel learning via dyadic dilations and also enables us to represent complex nonlinear dynamics effectively. To demonstrate the superiority of the proposed multiscale wavelet kernel in identifying complex nonlinear dynamic systems, two case studies are presented that aim at building parallel models on benchmark datasets. The development of parallel models that address the long-term/mid-term prediction issue is more intricate and challenging than the identification of series-parallel models where only one-step ahead prediction is required. Simulation results illustrate the effectiveness of the proposed multiscale kernel learning.

Directional dual-tree complex wavelet packet transforms for processing quadrature signals.

PubMed

Serbes, Gorkem; Gulcur, Halil Ozcan; Aydin, Nizamettin

2016-03-01

Quadrature signals containing in-phase and quadrature-phase components are used in many signal processing applications in every field of science and engineering. Specifically, Doppler ultrasound systems used to evaluate cardiovascular disorders noninvasively also result in quadrature format signals. In order to obtain directional blood flow information, the quadrature outputs have to be preprocessed using methods such as asymmetrical and symmetrical phasing filter techniques. These resultant directional signals can be employed in order to detect asymptomatic embolic signals caused by small emboli, which are indicators of a possible future stroke, in the cerebral circulation. Various transform-based methods such as Fourier and wavelet were frequently used in processing embolic signals. However, most of the times, the Fourier and discrete wavelet transforms are not appropriate for the analysis of embolic signals due to their non-stationary time-frequency behavior. Alternatively, discrete wavelet packet transform can perform an adaptive decomposition of the time-frequency axis. In this study, directional discrete wavelet packet transforms, which have the ability to map directional information while processing quadrature signals and have less computational complexity than the existing wavelet packet-based methods, are introduced. The performances of proposed methods are examined in detail by using single-frequency, synthetic narrow-band, and embolic quadrature signals.

Applications of wavelets in morphometric analysis of medical images

NASA Astrophysics Data System (ADS)

Davatzikos, Christos; Tao, Xiaodong; Shen, Dinggang

2003-11-01

Morphometric analysis of medical images is playing an increasingly important role in understanding brain structure and function, as well as in understanding the way in which these change during development, aging and pathology. This paper presents three wavelet-based methods with related applications in morphometric analysis of magnetic resonance (MR) brain images. The first method handles cases where very limited datasets are available for the training of statistical shape models in the deformable segmentation. The method is capable of capturing a larger range of shape variability than the standard active shape models (ASMs) can, by using the elegant spatial-frequency decomposition of the shape contours provided by wavelet transforms. The second method addresses the difficulty of finding correspondences in anatomical images, which is a key step in shape analysis and deformable registration. The detection of anatomical correspondences is completed by using wavelet-based attribute vectors as morphological signatures of voxels. The third method uses wavelets to characterize the morphological measurements obtained from all voxels in a brain image, and the entire set of wavelet coefficients is further used to build a brain classifier. Since the classification scheme operates in a very-high-dimensional space, it can determine subtle population differences with complex spatial patterns. Experimental results are provided to demonstrate the performance of the proposed methods.

Wavelet-based segmentation of renal compartments in DCE-MRI of human kidney: initial results in patients and healthy volunteers.

PubMed

Li, Sheng; Zöllner, Frank G; Merrem, Andreas D; Peng, Yinghong; Roervik, Jarle; Lundervold, Arvid; Schad, Lothar R

2012-03-01

Renal diseases can lead to kidney failure that requires life-long dialysis or renal transplantation. Early detection and treatment can prevent progression towards end stage renal disease. MRI has evolved into a standard examination for the assessment of the renal morphology and function. We propose a wavelet-based clustering to group the voxel time courses and thereby, to segment the renal compartments. This approach comprises (1) a nonparametric, discrete wavelet transform of the voxel time course, (2) thresholding of the wavelet coefficients using Stein's Unbiased Risk estimator, and (3) k-means clustering of the wavelet coefficients to segment the kidneys. Our method was applied to 3D dynamic contrast enhanced (DCE-) MRI data sets of human kidney in four healthy volunteers and three patients. On average, the renal cortex in the healthy volunteers could be segmented at 88%, the medulla at 91%, and the pelvis at 98% accuracy. In the patient data, with aberrant voxel time courses, the segmentation was also feasible with good results for the kidney compartments. In conclusion wavelet based clustering of DCE-MRI of kidney is feasible and a valuable tool towards automated perfusion and glomerular filtration rate quantification. Copyright © 2011 Elsevier Ltd. All rights reserved.

Wavelet analysis of hemispheroid flow separation toward understanding human vocal fold pathologies

NASA Astrophysics Data System (ADS)

Plesniak, Daniel H.; Carr, Ian A.; Bulusu, Kartik V.; Plesniak, Michael W.

2014-11-01

Physiological flows observed in human vocal fold pathologies, such as polyps and nodules, can be modeled by flow over a wall-mounted protuberance. The experimental investigation of flow separation over a surface-mounted hemispheroid was performed using particle image velocimetry (PIV) and measurements of surface pressure in a low-speed wind tunnel. This study builds on the hypothesis that the signatures of vortical structures associated with flow separation are imprinted on the surface pressure distributions. Wavelet decomposition methods in one- and two-dimensions were utilized to elucidate the flow behavior. First, a complex Gaussian wavelet was used for the reconstruction of surface pressure time series from static pressure measurements acquired from ports upstream, downstream, and on the surface of the hemispheroid. This was followed by the application of a novel continuous wavelet transform algorithm (PIVlet 1.2) using a 2D-Ricker wavelet for coherent structure detection on instantaneous PIV-data. The goal of this study is to correlate phase shifts in surface pressure with Strouhal numbers associated with the vortex shedding. Ultimately, the wavelet-based analytical framework will be aimed at addressing pulsatile flows. This material is based in part upon work supported by the National Science Foundation under Grant Number CBET-1236351, and GW Center for Biomimetics and Bioinspired Engineering (COBRE).

Wavelet processing techniques for digital mammography

NASA Astrophysics Data System (ADS)

Laine, Andrew F.; Song, Shuwu

1992-09-01

This paper introduces a novel approach for accomplishing mammographic feature analysis through multiresolution representations. We show that efficient (nonredundant) representations may be identified from digital mammography and used to enhance specific mammographic features within a continuum of scale space. The multiresolution decomposition of wavelet transforms provides a natural hierarchy in which to embed an interactive paradigm for accomplishing scale space feature analysis. Similar to traditional coarse to fine matching strategies, the radiologist may first choose to look for coarse features (e.g., dominant mass) within low frequency levels of a wavelet transform and later examine finer features (e.g., microcalcifications) at higher frequency levels. In addition, features may be extracted by applying geometric constraints within each level of the transform. Choosing wavelets (or analyzing functions) that are simultaneously localized in both space and frequency, results in a powerful methodology for image analysis. Multiresolution and orientation selectivity, known biological mechanisms in primate vision, are ingrained in wavelet representations and inspire the techniques presented in this paper. Our approach includes local analysis of complete multiscale representations. Mammograms are reconstructed from wavelet representations, enhanced by linear, exponential and constant weight functions through scale space. By improving the visualization of breast pathology we can improve the chances of early detection of breast cancers (improve quality) while requiring less time to evaluate mammograms for most patients (lower costs).

Exploring an optimal wavelet-based filter for cryo-ET imaging.

PubMed

Huang, Xinrui; Li, Sha; Gao, Song

2018-02-07

Cryo-electron tomography (cryo-ET) is one of the most advanced technologies for the in situ visualization of molecular machines by producing three-dimensional (3D) biological structures. However, cryo-ET imaging has two serious disadvantages-low dose and low image contrast-which result in high-resolution information being obscured by noise and image quality being degraded, and this causes errors in biological interpretation. The purpose of this research is to explore an optimal wavelet denoising technique to reduce noise in cryo-ET images. We perform tests using simulation data and design a filter using the optimum selected wavelet parameters (three-level decomposition, level-1 zeroed out, subband-dependent threshold, a soft-thresholding and spline-based discrete dyadic wavelet transform (DDWT)), which we call a modified wavelet shrinkage filter; this filter is suitable for noisy cryo-ET data. When testing using real cryo-ET experiment data, higher quality images and more accurate measures of a biological structure can be obtained with the modified wavelet shrinkage filter processing compared with conventional processing. Because the proposed method provides an inherent advantage when dealing with cryo-ET images, it can therefore extend the current state-of-the-art technology in assisting all aspects of cryo-ET studies: visualization, reconstruction, structural analysis, and interpretation.

Wavelet Denoising of Radio Observations of Rotating Radio Transients (RRATs): Improved Timing Parameters for Eight RRATs

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jiang, M.; Schmid, N. A.; Cao, Z.-C.

Rotating radio transients (RRATs) are sporadically emitting pulsars detectable only through searches for single pulses. While over 100 RRATs have been detected, only a small fraction (roughly 20%) have phase-connected timing solutions, which are critical for determining how they relate to other neutron star populations. Detecting more pulses in order to achieve solutions is key to understanding their physical nature. Astronomical signals collected by radio telescopes contain noise from many sources, making the detection of weak pulses difficult. Applying a denoising method to raw time series prior to performing a single-pulse search typically leads to a more accurate estimation ofmore » their times of arrival (TOAs). Taking into account some features of RRAT pulses and noise, we present a denoising method based on wavelet data analysis, an image-processing technique. Assuming that the spin period of an RRAT is known, we estimate the frequency spectrum components contributing to the composition of RRAT pulses. This allows us to suppress the noise, which contributes to other frequencies. We apply the wavelet denoising method including selective wavelet reconstruction and wavelet shrinkage to the de-dispersed time series of eight RRATs with existing timing solutions. The signal-to-noise ratio (S/N) of most pulses are improved after wavelet denoising. Compared to the conventional approach, we measure 12%–69% more TOAs for the eight RRATs. The new timing solutions for the eight RRATs show 16%–90% smaller estimation error of most parameters. Thus, we conclude that wavelet analysis is an effective tool for denoising RRATs signal.« less

Multiresolution Wavelet Based Adaptive Numerical Dissipation Control for Shock-Turbulence Computations

NASA Technical Reports Server (NTRS)

Sjoegreen, B.; Yee, H. C.

2001-01-01

The recently developed essentially fourth-order or higher low dissipative shock-capturing scheme of Yee, Sandham and Djomehri (1999) aimed at minimizing nu- merical dissipations for high speed compressible viscous flows containing shocks, shears and turbulence. To detect non smooth behavior and control the amount of numerical dissipation to be added, Yee et al. employed an artificial compression method (ACM) of Harten (1978) but utilize it in an entirely different context than Harten originally intended. The ACM sensor consists of two tuning parameters and is highly physical problem dependent. To minimize the tuning of parameters and physical problem dependence, new sensors with improved detection properties are proposed. The new sensors are derived from utilizing appropriate non-orthogonal wavelet basis functions and they can be used to completely switch to the extra numerical dissipation outside shock layers. The non-dissipative spatial base scheme of arbitrarily high order of accuracy can be maintained without compromising its stability at all parts of the domain where the solution is smooth. Two types of redundant non-orthogonal wavelet basis functions are considered. One is the B-spline wavelet (Mallat & Zhong 1992) used by Gerritsen and Olsson (1996) in an adaptive mesh refinement method, to determine regions where re nement should be done. The other is the modification of the multiresolution method of Harten (1995) by converting it to a new, redundant, non-orthogonal wavelet. The wavelet sensor is then obtained by computing the estimated Lipschitz exponent of a chosen physical quantity (or vector) to be sensed on a chosen wavelet basis function. Both wavelet sensors can be viewed as dual purpose adaptive methods leading to dynamic numerical dissipation control and improved grid adaptation indicators. Consequently, they are useful not only for shock-turbulence computations but also for computational aeroacoustics and numerical combustion. In addition, these sensors are scheme independent and can be stand alone options for numerical algorithm other than the Yee et al. scheme.

Detection and classification of Breast Cancer in Wavelet Sub-bands of Fractal Segmented Cancerous Zones.

PubMed

Shirazinodeh, Alireza; Noubari, Hossein Ahmadi; Rabbani, Hossein; Dehnavi, Alireza Mehri

2015-01-01

Recent studies on wavelet transform and fractal modeling applied on mammograms for the detection of cancerous tissues indicate that microcalcifications and masses can be utilized for the study of the morphology and diagnosis of cancerous cases. It is shown that the use of fractal modeling, as applied to a given image, can clearly discern cancerous zones from noncancerous areas. In this paper, for fractal modeling, the original image is first segmented into appropriate fractal boxes followed by identifying the fractal dimension of each windowed section using a computationally efficient two-dimensional box-counting algorithm. Furthermore, using appropriate wavelet sub-bands and image Reconstruction based on modified wavelet coefficients, it is shown that it is possible to arrive at enhanced features for detection of cancerous zones. In this paper, we have attempted to benefit from the advantages of both fractals and wavelets by introducing a new algorithm. By using a new algorithm named F1W2, the original image is first segmented into appropriate fractal boxes, and the fractal dimension of each windowed section is extracted. Following from that, by applying a maximum level threshold on fractal dimensions matrix, the best-segmented boxes are selected. In the next step, the segmented Cancerous zones which are candidates are then decomposed by utilizing standard orthogonal wavelet transform and db2 wavelet in three different resolution levels, and after nullifying wavelet coefficients of the image at the first scale and low frequency band of the third scale, the modified reconstructed image is successfully utilized for detection of breast cancer regions by applying an appropriate threshold. For detection of cancerous zones, our simulations indicate the accuracy of 90.9% for masses and 88.99% for microcalcifications detection results using the F1W2 method. For classification of detected mictocalcification into benign and malignant cases, eight features are identified and utilized in radial basis function neural network. Our simulation results indicate the accuracy of 92% classification using F1W2 method.

Design of virtual display and testing system for moving mass electromechanical actuator

NASA Astrophysics Data System (ADS)

Gao, Zhigang; Geng, Keda; Zhou, Jun; Li, Peng

2015-12-01

Aiming at the problem of control, measurement and movement virtual display of moving mass electromechanical actuator(MMEA), the virtual testing system of MMEA was developed based on the PC-DAQ architecture and the software platform of LabVIEW, and the comprehensive test task such as drive control of MMEA, tests of kinematic parameter, measurement of centroid position and virtual display of movement could be accomplished. The system could solve the alignment for acquisition time between multiple measurement channels in different DAQ cards, then on this basis, the researches were focused on the dynamic 3D virtual display by the LabVIEW, and the virtual display of MMEA were realized by the method of calling DLL and the method of 3D graph drawing controls. Considering the collaboration with the virtual testing system, including the hardware drive, the measurement software of data acquisition, and the 3D graph drawing controls method was selected, which could obtained the synchronization measurement, control and display. The system can measure dynamic centroid position and kinematic position of movable mass block while controlling the MMEA, and the interface of 3D virtual display has realistic effect and motion smooth, which can solve the problem of display and playback about MMEA in the closed shell.

SEQUOIA: significance enhanced network querying through context-sensitive random walk and minimization of network conductance.

PubMed

Jeong, Hyundoo; Yoon, Byung-Jun

2017-03-14

Network querying algorithms provide computational means to identify conserved network modules in large-scale biological networks that are similar to known functional modules, such as pathways or molecular complexes. Two main challenges for network querying algorithms are the high computational complexity of detecting potential isomorphism between the query and the target graphs and ensuring the biological significance of the query results. In this paper, we propose SEQUOIA, a novel network querying algorithm that effectively addresses these issues by utilizing a context-sensitive random walk (CSRW) model for network comparison and minimizing the network conductance of potential matches in the target network. The CSRW model, inspired by the pair hidden Markov model (pair-HMM) that has been widely used for sequence comparison and alignment, can accurately assess the node-to-node correspondence between different graphs by accounting for node insertions and deletions. The proposed algorithm identifies high-scoring network regions based on the CSRW scores, which are subsequently extended by maximally reducing the network conductance of the identified subnetworks. Performance assessment based on real PPI networks and known molecular complexes show that SEQUOIA outperforms existing methods and clearly enhances the biological significance of the query results. The source code and datasets can be downloaded from http://www.ece.tamu.edu/~bjyoon/SEQUOIA .

On the history of the connectivity index: from the connectivity index to the exact solution of the protein alignment problem.

PubMed

Randić, M

2015-01-01

We briefly review the history of the connectivity index from 1975 to date. We hope to throw some light on why this unique, by its design, graph theoretical molecular descriptor continues to be of interest in QSAR, having wide use in applications in structure-property and structure-activity studies. We will elaborate on its generalizations and the insights it offered on applications in Multiple Regression Analysis (MRA). Going beyond the connectivity index we will outline several related developments in the development of molecular descriptors used in MRA, including molecular ID numbers (1986), the variable connectivity index (1991), orthogonal regression (1991), irrelevance of co-linearity of descriptors (1997), anti-connectivity (2006), and high discriminatory descriptors characterizing molecular similarity (2015). We will comment on beauty in QSAR and recent progress in searching for similarity of DNA, proteins and the proteome. This review reports on several results which are little known to the structure-property-activity community, the significance of which may surprise those unfamiliar with the application of discrete mathematics to chemistry. It tells the reader many unknown stories about the connectivity index, which may help the reader to better understand the meaning of this index. Readers are not required to be familiar with graph theory.

Robust Inference of Genetic Exchange Communities from Microbial Genomes Using TF-IDF.

PubMed

Cong, Yingnan; Chan, Yao-Ban; Phillips, Charles A; Langston, Michael A; Ragan, Mark A

2017-01-01

Bacteria and archaea can exchange genetic material across lineages through processes of lateral genetic transfer (LGT). Collectively, these exchange relationships can be modeled as a network and analyzed using concepts from graph theory. In particular, densely connected regions within an LGT network have been defined as genetic exchange communities (GECs). However, it has been problematic to construct networks in which edges solely represent LGT. Here we apply term frequency-inverse document frequency (TF-IDF), an alignment-free method originating from document analysis, to infer regions of lateral origin in bacterial genomes. We examine four empirical datasets of different size (number of genomes) and phyletic breadth, varying a key parameter (word length k ) within bounds established in previous work. We map the inferred lateral regions to genes in recipient genomes, and construct networks in which the nodes are groups of genomes, and the edges natively represent LGT. We then extract maximum and maximal cliques (i.e., GECs) from these graphs, and identify nodes that belong to GECs across a wide range of k . Most surviving lateral transfer has happened within these GECs. Using Gene Ontology enrichment tests we demonstrate that biological processes associated with metabolism, regulation and transport are often over-represented among the genes affected by LGT within these communities. These enrichments are largely robust to change of k .

Alignment-free protein interaction network comparison

PubMed Central

Ali, Waqar; Rito, Tiago; Reinert, Gesine; Sun, Fengzhu; Deane, Charlotte M.

2014-01-01

Motivation: Biological network comparison software largely relies on the concept of alignment where close matches between the nodes of two or more networks are sought. These node matches are based on sequence similarity and/or interaction patterns. However, because of the incomplete and error-prone datasets currently available, such methods have had limited success. Moreover, the results of network alignment are in general not amenable for distance-based evolutionary analysis of sets of networks. In this article, we describe Netdis, a topology-based distance measure between networks, which offers the possibility of network phylogeny reconstruction. Results: We first demonstrate that Netdis is able to correctly separate different random graph model types independent of network size and density. The biological applicability of the method is then shown by its ability to build the correct phylogenetic tree of species based solely on the topology of current protein interaction networks. Our results provide new evidence that the topology of protein interaction networks contains information about evolutionary processes, despite the lack of conservation of individual interactions. As Netdis is applicable to all networks because of its speed and simplicity, we apply it to a large collection of biological and non-biological networks where it clusters diverse networks by type. Availability and implementation: The source code of the program is freely available at http://www.stats.ox.ac.uk/research/proteins/resources. Contact: w.ali@stats.ox.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online. PMID:25161230

"NONLINEAR DYNAMIC SYSTEMS RESPONSE TO NON-STATIONARY EXCITATION USING THE WAVELET TRANSFORM"

DOE Office of Scientific and Technical Information (OSTI.GOV)

SPANOS, POL D.

2006-01-15

The objective of this research project has been the development of techniques for estimating the power spectra of stochastic processes using wavelet transform, and the development of related techniques for determining the response of linear/nonlinear systems to excitations which are described via the wavelet transform. Both of the objectives have been achieved, and the research findings have been disseminated in papers in archival journals and technical conferences.

Fast, large-scale hologram calculation in wavelet domain

NASA Astrophysics Data System (ADS)

Shimobaba, Tomoyoshi; Matsushima, Kyoji; Takahashi, Takayuki; Nagahama, Yuki; Hasegawa, Satoki; Sano, Marie; Hirayama, Ryuji; Kakue, Takashi; Ito, Tomoyoshi

2018-04-01

We propose a large-scale hologram calculation using WAvelet ShrinkAge-Based superpositIon (WASABI), a wavelet transform-based algorithm. An image-type hologram calculated using the WASABI method is printed on a glass substrate with the resolution of 65 , 536 × 65 , 536 pixels and a pixel pitch of 1 μm. The hologram calculation time amounts to approximately 354 s on a commercial CPU, which is approximately 30 times faster than conventional methods.

Music Tune Restoration Based on a Mother Wavelet Construction

NASA Astrophysics Data System (ADS)

Fadeev, A. S.; Konovalov, V. I.; Butakova, T. I.; Sobetsky, A. V.

2017-01-01

It is offered to use the mother wavelet function obtained from the local part of an analyzed music signal. Requirements for the constructed function are proposed and the implementation technique and its properties are described. The suggested approach allows construction of mother wavelet families with specified identifying properties. Consequently, this makes possible to identify the basic signal variations of complex music signals including local time-frequency characteristics of the basic one.

Experimental study on Statistical Damage Detection of RC Structures based on Wavelet Packet Analysis

NASA Astrophysics Data System (ADS)

Zhu, X. Q.; Law, S. S.; Jayawardhan, M.

2011-07-01

A novel damage indicator based on wavelet packet transform is developed in this study for structural health monitoring. The response signal of a structure under an impact load is normalized and then decomposed into wavelet packet components. Energies of these wavelet packet components are then calculated to obtain the energy distribution. A statistical indicator is developed to describe the damage extent of the structure. This approach is applied to the test results from simply supported reinforced concrete beams in the laboratory. Cases with single damage are created from static loading, and accelerations of the structure from under impact loads are analyzed. Results show that the method can be used for the damage monitoring and assessment of the structure.

Visual information processing; Proceedings of the Meeting, Orlando, FL, Apr. 20-22, 1992

NASA Technical Reports Server (NTRS)

Huck, Friedrich O. (Editor); Juday, Richard D. (Editor)

1992-01-01

Topics discussed in these proceedings include nonlinear processing and communications; feature extraction and recognition; image gathering, interpolation, and restoration; image coding; and wavelet transform. Papers are presented on noise reduction for signals from nonlinear systems; driving nonlinear systems with chaotic signals; edge detection and image segmentation of space scenes using fractal analyses; a vision system for telerobotic operation; a fidelity analysis of image gathering, interpolation, and restoration; restoration of images degraded by motion; and information, entropy, and fidelity in visual communication. Attention is also given to image coding methods and their assessment, hybrid JPEG/recursive block coding of images, modified wavelets that accommodate causality, modified wavelet transform for unbiased frequency representation, and continuous wavelet transform of one-dimensional signals by Fourier filtering.

Short-term data forecasting based on wavelet transformation and chaos theory

NASA Astrophysics Data System (ADS)

Wang, Yi; Li, Cunbin; Zhang, Liang

2017-09-01

A sketch of wavelet transformation and its application was given. Concerning the characteristics of time sequence, Haar wavelet was used to do data reduction. After processing, the effect of “data nail” on forecasting was reduced. Chaos theory was also introduced, a new chaos time series forecasting flow based on wavelet transformation was proposed. The largest Lyapunov exponent was larger than zero from small data sets, it verified the data change behavior still met chaotic behavior. Based on this, chaos time series to forecast short-term change behavior could be used. At last, the example analysis of the price from a real electricity market showed that the forecasting method increased the precision of the forecasting more effectively and steadily.

Hyperspectral imaging with wavelet transform for classification of colon tissue biopsy samples

NASA Astrophysics Data System (ADS)

Masood, Khalid

2008-08-01

Automatic classification of medical images is a part of our computerised medical imaging programme to support the pathologists in their diagnosis. Hyperspectral data has found its applications in medical imagery. Its usage is increasing significantly in biopsy analysis of medical images. In this paper, we present a histopathological analysis for the classification of colon biopsy samples into benign and malignant classes. The proposed study is based on comparison between 3D spectral/spatial analysis and 2D spatial analysis. Wavelet textural features in the wavelet domain are used in both these approaches for classification of colon biopsy samples. Experimental results indicate that the incorporation of wavelet textural features using a support vector machine, in 2D spatial analysis, achieve best classification accuracy.

Wavelet analysis for wind fields estimation.

PubMed

Leite, Gladeston C; Ushizima, Daniela M; Medeiros, Fátima N S; de Lima, Gilson G

2010-01-01

Wind field analysis from synthetic aperture radar images allows the estimation of wind direction and speed based on image descriptors. In this paper, we propose a framework to automate wind direction retrieval based on wavelet decomposition associated with spectral processing. We extend existing undecimated wavelet transform approaches, by including à trous with B(3) spline scaling function, in addition to other wavelet bases as Gabor and Mexican-hat. The purpose is to extract more reliable directional information, when wind speed values range from 5 to 10 ms(-1). Using C-band empirical models, associated with the estimated directional information, we calculate local wind speed values and compare our results with QuikSCAT scatterometer data. The proposed approach has potential application in the evaluation of oil spills and wind farms.

Multiresolution motion planning for autonomous agents via wavelet-based cell decompositions.

PubMed

Cowlagi, Raghvendra V; Tsiotras, Panagiotis

2012-10-01

We present a path- and motion-planning scheme that is "multiresolution" both in the sense of representing the environment with high accuracy only locally and in the sense of addressing the vehicle kinematic and dynamic constraints only locally. The proposed scheme uses rectangular multiresolution cell decompositions, efficiently generated using the wavelet transform. The wavelet transform is widely used in signal and image processing, with emerging applications in autonomous sensing and perception systems. The proposed motion planner enables the simultaneous use of the wavelet transform in both the perception and in the motion-planning layers of vehicle autonomy, thus potentially reducing online computations. We rigorously prove the completeness of the proposed path-planning scheme, and we provide numerical simulation results to illustrate its efficacy.

Application of based on improved wavelet algorithm in fiber temperature sensor

NASA Astrophysics Data System (ADS)

Qi, Hui; Tang, Wenjuan

2018-03-01

It is crucial point that accurate temperature in distributed optical fiber temperature sensor. In order to solve the problem of temperature measurement error due to weak Raman scattering signal and strong noise in system, a new based on improved wavelet algorithm is presented. On the basis of the traditional modulus maxima wavelet algorithm, signal correlation is considered to improve the ability to capture signals and noise, meanwhile, combined with wavelet decomposition scale adaptive method to eliminate signal loss or noise not filtered due to mismatch scale. Superiority of algorithm filtering is compared with others by Matlab. At last, the 3km distributed optical fiber temperature sensing system is used for verification. Experimental results show that accuracy of temperature generally increased by 0.5233.