Nonnegative CANDECOMP/PARAFAC (CP) factorization of incomplete tensors is a powerful technique for finding meaningful and physically interpretable latent factor matrices to achieve nonnegative tensor completion. However, most existing nonnegative CP models rely on manually predefined tensor ranks, which introduces uncertainty and leads the models to overfit or underfit. Although the presence of CP models within the probabilistic framework can estimate rank better, they lack the ability to learn nonnegative factors from incomplete data. In addition, existing approaches tend to focus on point estimation and ignore estimating uncertainty. To address these issues within a unified framework, we propose a fully Bayesian treatment of nonnegative tensor completion with automatic rank determination. Benefitting from the Bayesian framework and the hierarchical sparsity-inducing priors, the model can provide uncertainty estimates of nonnegative latent factors and effectively obtain low-rank structures from incomplete tensors. Additionally, the proposed model can mitigate problems of parameter selection and overfitting. For model learning, we develop two fully Bayesian inference methods for posterior estimation and propose a hybrid computing strategy that reduces the time overhead for large-scale data significantly. Extensive simulations on synthetic data demonstrate that our model can recover missing data with high precision and automatically estimate CP rank from incomplete tensors. Moreover, results from real-world applications demonstrate that our model is superior to state-of-the-art methods in image and video inpainting. The code is available at https://github.com/zecanyang/BNTC.
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http://dx.doi.org/10.1109/TIP.2024.3459647 | DOI Listing |
IEEE Trans Image Process
March 2025
Nonnegative CANDECOMP/PARAFAC (CP) factorization of incomplete tensors is a powerful technique for finding meaningful and physically interpretable latent factor matrices to achieve nonnegative tensor completion. However, most existing nonnegative CP models rely on manually predefined tensor ranks, which introduces uncertainty and leads the models to overfit or underfit. Although the presence of CP models within the probabilistic framework can estimate rank better, they lack the ability to learn nonnegative factors from incomplete data.
View Article and Find Full Text PDFJ Am Stat Assoc
June 2024
Department of Statistics, University of Wisconsin, Madison, WI, USA, 53706.
Emerging single cell technologies that simultaneously capture long-range interactions of genomic loci together with their DNA methylation levels are advancing our understanding of three-dimensional genome structure and its interplay with the epigenome at the single cell level. While methods to analyze data from single cell high throughput chromatin conformation capture (scHi-C) experiments are maturing, methods that can jointly analyze multiple single cell modalities with scHi-C data are lacking. Here, we introduce Muscle, a semi-nonnegative joint decomposition of Multiple single cell tensors, to jointly analyze 3D conformation and DNA methylation data at the single cell level.
View Article and Find Full Text PDFIEEE Trans Neural Netw Learn Syst
September 2024
Recently, a strong interest has been in multiview high-dimensional data collected through cross-domain or various feature extraction mechanisms. Nonnegative matrix factorization (NMF) is an effective method for clustering these high-dimensional data with clear physical significance. However, existing multiview clustering based on NMF only measures the difference between the elements of the coefficient matrix without considering the spatial structure relationship between the elements.
View Article and Find Full Text PDFIEEE Trans Pattern Anal Mach Intell
December 2024
DeepTensor is a computationally efficient framework for low-rank decomposition of matrices and tensors using deep generative networks. We decompose a tensor as the product of low-rank tensor factors (e.g.
View Article and Find Full Text PDFBioinformatics
June 2024
Department of Computer Science and Engineering, University of Minnesota Twin Cities, Minneapolis, MN, 55455, United States.
Unlabelled: Spatial transcripome (ST) profiling can reveal cells' structural organizations and functional roles in tissues. However, deciphering the spatial context of gene expressions in ST data is a challenge-the high-order structure hiding in whole transcriptome space over 2D/3D spatial coordinates requires modeling and detection of interpretable high-order elements and components for further functional analysis and interpretation. This paper presents a new method GraphTucker-graph-regularized Tucker tensor decomposition for learning high-order factorization in ST data.
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