arXiv subjects

Shih-Gu Huang

Publications and source records attributed to Shih-Gu Huang.

13 recordsLinked to original sources

arXiv2024

Persistent Homological State-Space Estimation of Functional Human Brain Networks at Rest

We introduce an innovative, data-driven topological data analysis (TDA) technique for estimating the state spaces of dynamically changing functional human brain networks at rest. Our method utilizes the Wasserstein distance to measure topological differences, enabling the clustering of brain networks into distinct topological states. This technique outperforms the commonly used k-means clustering in identifying brain network state spaces by effectively incorporating the temporal dynamics of the data without the need for explicit model specification. We further investigate the genetic underpinnings of these topological features using a twin study design, examining the heritability of such state changes. Our findings suggest that the topology of brain networks, particularly in their dynamic state changes, may hold significant hidden genetic information. MATLAB code for the method is available at https://github.com/laplcebeltrami/PH-STAT.

math.AT↗

arXiv2020

Revisiting convolutional neural network on graphs with polynomial approximations of Laplace-Beltrami spectral filtering

This paper revisits spectral graph convolutional neural networks (graph-CNNs) given in Defferrard (2016) and develops the Laplace-Beltrami CNN (LB-CNN) by replacing the graph Laplacian with the LB operator. We then define spectral filters via the LB operator on a graph. We explore the feasibility of Chebyshev, Laguerre, and Hermite polynomials to approximate LB-based spectral filters and define an update of the LB operator for pooling in the LBCNN. We employ the brain image data from Alzheimer's Disease Neuroimaging Initiative (ADNI) and demonstrate the use of the proposed LB-CNN. Based on the cortical thickness of the ADNI dataset, we showed that the LB-CNN didn't improve classification accuracy compared to the spectral graph-CNN. The three polynomials had a similar computational cost and showed comparable classification accuracy in the LB-CNN or spectral graph-CNN. Our findings suggest that even though the shapes of the three polynomials are different, deep learning architecture allows us to learn spectral filters such that the classification performance is not dependent on the type of the polynomials or the operators (graph Laplacian and LB operator).

cs.LG↗

arXiv2020

Statistical Analysis of Dynamic Functional Brain Networks in Twins

Recent studies have shown that functional brain brainwork is dynamic even during rest. A common approach to modeling the brain network in whole brain resting-state fMRI is to compute the correlation between anatomical regions via sliding windows. However, the direct use of the sample correlation matrices is not reliable due to the image acquisition, processing noises and the use of discrete windows that often introduce spurious high-frequency fluctuations and the zig-zag pattern in the estimated time-varying correlation measures. To address the problem and obtain more robust correlation estimates, we propose the heat kernel based dynamic correlations. We demonstrate that the proposed heat kernel method can smooth out the unwanted high-frequency fluctuations in correlation estimations and achieve higher accuracy in identifying dynamically changing distinct states. The method is further used in determining if such dynamic state change is genetically heritable using a large-scale twin study. Various methodological challenges for analyzing paired twin dynamic networks are addressed.

stat.AP↗

arXiv2020

Fast Mesh Data Augmentation via Chebyshev Polynomial of Spectral filtering

Deep neural networks have recently been recognized as one of the powerful learning techniques in computer vision and medical image analysis. Trained deep neural networks need to be generalizable to new data that was not seen before. In practice, there is often insufficient training data available and augmentation is used to expand the dataset. Even though graph convolutional neural network (graph-CNN) has been widely used in deep learning, there is a lack of augmentation methods to generate data on graphs or surfaces. This study proposes two unbiased augmentation methods, Laplace-Beltrami eigenfunction Data Augmentation (LB-eigDA) and Chebyshev polynomial Data Augmentation (C-pDA), to generate new data on surfaces, whose mean is the same as that of real data. LB-eigDA augments data via the resampling of the LB coefficients. In parallel with LB-eigDA, we introduce a fast augmentation approach, C-pDA, that employs a polynomial approximation of LB spectral filters on surfaces. We design LB spectral bandpass filters by Chebyshev polynomial approximation and resample signals filtered via these filters to generate new data on surfaces. We first validate LB-eigDA and C-pDA via simulated data and demonstrate their use for improving classification accuracy. We then employ the brain images of Alzheimer's Disease Neuroimaging Initiative (ADNI) and extract cortical thickness that is represented on the cortical surface to illustrate the use of the two augmentation methods. We demonstrate that augmented cortical thickness has a similar pattern to real data. Second, we show that C-pDA is much faster than LB-eigDA. Last, we show that C-pDA can improve the AD classification accuracy of graph-CNN.

cs.LG↗

arXiv2020

Fast Polynomial Approximation of Heat Kernel Convolution on Manifolds and Its Application to Brain Sulcal and Gyral Graph Pattern Analysis

Heat diffusion has been widely used in brain imaging for surface fairing, mesh regularization and cortical data smoothing. Motivated by diffusion wavelets and convolutional neural networks on graphs, we present a new fast and accurate numerical scheme to solve heat diffusion on surface meshes. This is achieved by approximating the heat kernel convolution using high degree orthogonal polynomials in the spectral domain. We also derive the closed-form expression of the spectral decomposition of the Laplace-Beltrami operator and use it to solve heat diffusion on a manifold for the first time. The proposed fast polynomial approximation scheme avoids solving for the eigenfunctions of the Laplace-Beltrami operator, which is computationally costly for large mesh size, and the numerical instability associated with the finite element method based diffusion solvers. The proposed method is applied in localizing the male and female differences in cortical sulcal and gyral graph patterns obtained from MRI in an innovative way. The MATLAB code is available at http://www.stat.wisc.edu/~mchung/chebyshev.

cs.CV↗

arXiv2019

Statistical Model for Dynamically-Changing Correlation Matrices with Application to Brain Connectivity

Background: Recent studies have indicated that functional connectivity is dynamic even during rest. A common approach to modeling the dynamic functional connectivity in whole-brain resting-state fMRI is to compute the correlation between anatomical regions via sliding time windows. However, the direct use of the sample correlation matrices is not reliable due to the image acquisition and processing noises in resting-sate fMRI. New method: To overcome these limitations, we propose a new statistical model that smooths out the noise by exploiting the geometric structure of correlation matrices. The dynamic correlation matrix is modeled as a linear combination of symmetric positive-definite matrices combined with cosine series representation. The resulting smoothed dynamic correlation matrices are clustered into disjoint brain connectivity states using the k-means clustering algorithm. Results: The proposed model preserves the geometric structure of underlying physiological dynamic correlation, eliminates unwanted noise in connectivity and obtains more accurate state spaces. The difference in the estimated dynamic connectivity states between males and females is identified. Comparison with existing methods: We demonstrate that the proposed statistical model has less rapid state changes caused by noise and improves the accuracy in identifying and discriminating different states. Conclusions: We propose a new regression model on dynamically changing correlation matrices that provides better performance over existing windowed correlation and is more reliable for the modeling of dynamic connectivity.

q-bio.NC↗

arXiv2019

Rapid Acceleration of the Permutation Test via Slow Random Walks in the Permutation Group

The permutation test is an often used test procedure in brain imaging. Unfortunately, generating every possible permutation for large-scale brain image datasets such as HCP and ADNI with hundreds images is not practical. Many previous attempts at speeding up the permutation test rely on various approximation strategies such as estimating the tail distribution with known parametric distributions. In this study, we show how to rapidly accelerate the permutation test without any type of approximate strategies by exploiting the underlying algebraic structure of the permutation group. The method is applied to large number of MRIs in two applications: (1) localizing the male and female differences and (2) localizing the regions of high genetic heritability in the sulcal and gyral pattern of the human cortical brain.

stat.CO↗

arXiv2017

Fast and accurate computation of normalized Bargmann transform

The linear canonical transform (LCT) was extended to complex-valued parameters, called complex LCT, to describe the complex amplitude propagation through lossy or lossless optical systems. Bargmann transform is a special case of the complex LCT. In this paper, we normalize the Bargmann transform such that it can be bounded near infinity. We derive the relationships of the normalized Bargmann transform to Gabor transform, Hermite-Gaussian functions, gyrator transform, and 2D nonseparable LCT. Several kinds of fast and accurate computational methods of the normalized Bargmann transform and its inverse are proposed based on these relationships.

quant-ph↗

arXiv2017

Reversible Joint Hilbert and Linear Canonical Transform Without Distortion

Generalized analytic signal associated with the linear canonical transform (LCT) was proposed recently by Fu and Li ["Generalized Analytic Signal Associated With Linear Canonical Transform," Opt. Commun., vol. 281, pp. 1468-1472, 2008]. However, most real signals, especially for baseband real signals, cannot be perfectly recovered from their generalized analytic signals. Therefore, in this paper, the conventional Hilbert transform (HT) and analytic signal associated with the LCT are concerned. To transform a real signal into the LCT of its HT, two integral transforms (i.e., the HT and LCT) are required. The goal of this paper is to simplify cascades of multiple integral transforms, which may be the HT, analytic signal, LCT or inverse LCT. The proposed transforms can reduce the complexity when realizing the relationships among the following six kinds of signals: a real signal, its HT and analytic signal, and the LCT of these three signals. Most importantly, all the proposed transforms are reversible and undistorted. Using the proposed transforms, several signal processing applications are discussed and show the advantages and flexibility over simply using the analytic signal or the LCT.

cs.IT↗

arXiv2017

Fast Discrete Linear Canonical Transform Based on CM-CC-CM Decomposition and FFT

In this paper, a discrete LCT (DLCT) irrelevant to the sampling periods and without oversampling operation is developed. This DLCT is based on the well-known CM-CC-CM decomposition, that is, implemented by two discrete chirp multiplications (CMs) and one discrete chirp convolution (CC). This decomposition doesn't use any scaling operation which will change the sampling period or cause the interpolation error. Compared with previous works, DLCT calculated by direct summation and DLCT based on center discrete dilated Hermite functions (CDDHFs), the proposed method implemented by FFTs has much lower computational complexity. The relation between the proposed DLCT and the continuous LCT is also derived to approximate the samples of the continuous LCT. Simulation results show that the proposed method somewhat outperforms the CDDHFs-based method in the approximation accuracy. Besides, the proposed method has approximate additivity property with error as small as the CDDHFs-based method. Most importantly, the proposed method has perfect reversibility, which doesn't hold in many existing DLCTs. With this property, it is unnecessary to develop the inverse DLCT additionally because it can be replaced by the forward DLCT.

cs.IT↗

arXiv2017

Discrete Gyrator Transforms: Computational Algorithms and Applications

As an extension of the 2D fractional Fourier transform (FRFT) and a special case of the 2D linear canonical transform (LCT), the gyrator transform was introduced to produce rotations in twisted space/spatial-frequency planes. It is a useful tool in optics, signal processing and image processing. In this paper, we develop discrete gyrator transforms (DGTs) based on the 2D LCT. Taking the advantage of the additivity property of the 2D LCT, we propose three kinds of DGTs, each of which is a cascade of low-complexity operators. These DGTs have different constraints, characteristics, and properties, and are realized by different computational algorithms. Besides, we propose a kind of DGT based on the eigenfunctions of the gyrator transform. This DGT is an orthonormal transform, and thus its comprehensive properties, especially the additivity property, make it more useful in many applications. We also develop an efficient computational algorithm to significantly reduce the complexity of this DGT. At the end, a brief review of some important applications of the DGTs is presented, including mode conversion, sampling and reconstruction, watermarking, and image encryption.

cs.CV↗

arXiv2017

Two-dimensional nonseparable discrete linear canonical transform based on CM-CC-CM-CC decomposition

As a generalization of the two-dimensional Fourier transform (2D FT) and 2D fractional Fourier transform, the 2D nonseparable linear canonical transform (2D NsLCT) is useful in optics, signal and image processing. To reduce the digital implementation complexity of the 2D NsLCT, some previous works decomposed the 2D NsLCT into several low-complexity operations, including 2D FT, 2D chirp multiplication (2D CM) and 2D affine transformations. However, 2D affine transformations will introduce interpolation error. In this paper, we propose a new decomposition called CM-CC-CM-CC decomposition, which decomposes the 2D NsLCT into two 2D CMs and two 2D chirp convolutions (2D CCs). No 2D affine transforms are involved. Simulation results show that the proposed methods have higher accuracy, lower computational complexity and smaller error in the additivity property compared with the previous works. Plus, the proposed methods have perfect reversibility property that one can reconstruct the input signal/image losslessly from the output.

cs.CV↗

arXiv2017

STFT with Adaptive Window Width Based on the Chirp Rate

An adaptive time-frequency representation (TFR) with higher energy concentration usually requires higher complexity. Recently, a low-complexity adaptive short-time Fourier transform (ASTFT) based on the chirp rate has been proposed. To enhance the performance, this method is substantially modified in this paper: i) because the wavelet transform used for instantaneous frequency (IF) estimation is not signal-dependent, a low-complexity ASTFT based on a novel concentration measure is addressed; ii) in order to increase robustness to IF estimation error, the principal component analysis (PCA) replaces the difference operator for calculating the chirp rate; and iii) a more robust Gaussian kernel with time-frequency-varying window width is proposed. Simulation results show that our method has higher energy concentration than the other ASTFTs, especially for multicomponent signals and nonlinear FM signals. Also, for IF estimation, our method is superior to many other adaptive TFRs in low signal-to-noise ratio (SNR) environments.

cs.IT↗