Julia package for multiway (inverse) covariance estimation.

Overview

TensorGraphicalModels

TensorGraphicalModels.jl is a suite of Julia tools for estimating high-dimensional multiway (tensor-variate) covariance and inverse covariance matrices.

Installation

] add https://github.com/ywa136/TensorGraphicalModels.jl

Examples

Please check out a Julia colab created for illustration of some functionalities of the package. Here are some basic examples as well:

Example code for fitting a KP inverse covariance model:

using TensorGraphicalModels

model_type = "kp"
sub_model_type = "sb" #this defines the structure of the Kronecker factors, sb = star-block
K = 3
N = 1000
d_list = [5, 10, 15]

X = gen_kronecker_data(model_type, sub_model_type, K, N, d_list) #multi-dimensional array (tensor) of dimension d_1 × … × d_K × N
Ψ_hat_list = kglasso(X)

Example code for fitting a KS inverse covariance model:

using TensorGraphicalModels

model_type = "ks"
sub_model_type = "sb" #this defines the structure of the Kronecker factors, sb = star-block
K = 3
N = 1000
d_list = [5, 10, 15]

X = gen_kronecker_data(model_type, sub_model_type, K, N, d_list, tensorize_out = false) #matrix of dimension d × N

# compute the mode-k Gram matrices (the sufficient statistics for TeraLasso)
X_kGram = [zeros(d_list[k], d_list[k]) for k = 1:K]
Xk = [zeros(d_list[k], Int(prod(d_list) / d_list[k])) for k = 1:K]
for k = 1:K
    for i = 1:N
        copy!(Xk[k], tenmat(reshape(view(X, :, i), d_list), k))
        mul!(X_kGram[k], Xk[k], copy(transpose(Xk[k])), 1.0 / N, 1.0)
    end
end

Ψ_hat_list, _ = teralasso(X_kGram)

Example code for fitting a Sylvester inverse covariance model:

using TensorGraphicalModels

model_type = "sylvester"
sub_model_type = "sb" #this defines the structure of the Kronecker factors, sb = star-block
K = 3
N = 1000
d_list = [5, 10, 15]

X = gen_kronecker_data(model_type, sub_model_type, K, N, d_list, tensorize_out = false) #matrix of dimension d × N

# compute the mode-k Gram matrices (the sufficient statistics for TeraLasso)
X_kGram = [zeros(d_list[k], d_list[k]) for k = 1:K]
Xk = [zeros(d_list[k], Int(prod(d_list) / d_list[k])) for k = 1:K]
for k = 1:K
    for i = 1:N
        copy!(Xk[k], tenmat(reshape(view(X, :, i), d_list), k))
        mul!(X_kGram[k], Xk[k], copy(transpose(Xk[k])), 1.0 / N, 1.0)
    end
end

Psi0 = [sparse(eye(d_list[k])) for k = 1:K]
fun = (iter, Psi) -> [1, time()] # NULL func
lambda = [sqrt(px[k] * log(prod(d_list)) / N) for k = 1:K] 

Ψ_hat_list, _ = syglasso_palm(X, X_kGram, lambda, Psi0, fun = fun)

Example code for fitting a KPCA covariance model:

using TensorGraphicalModels

px = py = 25 #works for K=2 modes only
N = 100
X = zeros((px * py, N))

for i=1:N
    X[:, i] .= vec(rand(MatrixNormal(zeros((px, py)), ScalMat(px, 2.0), ScalMat(py, 4.0))))
end

S = cov(copy(X')) #sample covariance matrix
lambdaL = 20 * (px^2 + py^2 + log(max(px, py, N))) / N
lambdaS = 20 * sqrt(log(px * py)/N)

# robust Kronecker PCA methods using singular value thresholding
Sigma_hat = robust_kron_pca(S, px, py, lambdaL, lambdaS, "SVT"; tau = 0.5, r = 5)
Owner
Wayne Wang
Ph.D. candidate in statistics
Wayne Wang
3D detection and tracking viewer (visualization) for kitti & waymo dataset

3D detection and tracking viewer (visualization) for kitti & waymo dataset

222 Jan 08, 2023
DiAne is a smart fuzzer for IoT devices

Diane Diane is a fuzzer for IoT devices. Diane works by identifying fuzzing triggers in the IoT companion apps to produce valid yet under-constrained

seclab 28 Jan 04, 2023
MatryODShka: Real-time 6DoF Video View Synthesis using Multi-Sphere Images

Main repo for ECCV 2020 paper MatryODShka: Real-time 6DoF Video View Synthesis using Multi-Sphere Images. visual.cs.brown.edu/matryodshka

Brown University Visual Computing Group 75 Dec 13, 2022
Highly comparative time-series analysis

〰️ hctsa 〰️ : highly comparative time-series analysis hctsa is a software package for running highly comparative time-series analysis using Matlab (fu

Ben Fulcher 569 Dec 21, 2022
Graph Regularized Residual Subspace Clustering Network for hyperspectral image clustering

Graph Regularized Residual Subspace Clustering Network for hyperspectral image clustering

Yaoming Cai 5 Jul 18, 2022
This repository provides the code for MedViLL(Medical Vision Language Learner).

MedViLL This repository provides the code for MedViLL(Medical Vision Language Learner). Our proposed architecture MedViLL is a single BERT-based model

SuperSuperMoon 39 Jan 05, 2023
AI that generate music

PianoGPT ai that generate music try it here https://share.streamlit.io/annasajkh/pianogpt/main/main.py or here https://huggingface.co/spaces/Annas/Pia

Annas 28 Nov 27, 2022
Collective Multi-type Entity Alignment Between Knowledge Graphs (WWW'20)

CG-MuAlign A reference implementation for "Collective Multi-type Entity Alignment Between Knowledge Graphs", published in WWW 2020. If you find our pa

Bran Zhu 28 Dec 11, 2022
Mining-the-Social-Web-3rd-Edition - The official online compendium for Mining the Social Web, 3rd Edition (O'Reilly, 2018)

Mining the Social Web, 3rd Edition The official code repository for Mining the Social Web, 3rd Edition (O'Reilly, 2019). The book is available from Am

Mikhail Klassen 838 Jan 01, 2023
使用深度学习框架提取视频硬字幕;docker容器免安装深度学习库,使用本地api接口使得界面和后端识别分离;

extract-video-subtittle 使用深度学习框架提取视频硬字幕; 本地识别无需联网; CPU识别速度可观; 容器提供API接口; 运行环境 本项目运行环境非常好搭建,我做好了docker容器免安装各种深度学习包; 提供windows界面操作; 容器为CPU版本; 视频演示 https

歌者 16 Aug 06, 2022
PiCIE: Unsupervised Semantic Segmentation using Invariance and Equivariance in clustering (CVPR2021)

PiCIE: Unsupervised Semantic Segmentation using Invariance and Equivariance in Clustering Jang Hyun Cho1, Utkarsh Mall2, Kavita Bala2, Bharath Harihar

Jang Hyun Cho 164 Dec 30, 2022
Code for Deterministic Neural Networks with Appropriate Inductive Biases Capture Epistemic and Aleatoric Uncertainty

Deep Deterministic Uncertainty This repository contains the code for Deterministic Neural Networks with Appropriate Inductive Biases Capture Epistemic

Jishnu Mukhoti 69 Nov 28, 2022
An open source Python package for plasma science that is under development

PlasmaPy PlasmaPy is an open source, community-developed Python 3.7+ package for plasma science. PlasmaPy intends to be for plasma science what Astrop

PlasmaPy 444 Jan 07, 2023
Official codebase for "B-Pref: Benchmarking Preference-BasedReinforcement Learning" contains scripts to reproduce experiments.

B-Pref Official codebase for B-Pref: Benchmarking Preference-BasedReinforcement Learning contains scripts to reproduce experiments. Install conda env

48 Dec 20, 2022
A scikit-learn-compatible module for estimating prediction intervals.

MAPIE - Model Agnostic Prediction Interval Estimator MAPIE allows you to easily estimate prediction intervals (or prediction sets) using your favourit

588 Jan 04, 2023
Official implementation of "Membership Inference Attacks Against Self-supervised Speech Models"

Introduction Official implementation of "Membership Inference Attacks Against Self-supervised Speech Models". In this work, we demonstrate that existi

Wei-Cheng Tseng 7 Nov 01, 2022
Vision Transformer and MLP-Mixer Architectures

Vision Transformer and MLP-Mixer Architectures Update (2.7.2021): Added the "When Vision Transformers Outperform ResNets..." paper, and SAM (Sharpness

Google Research 6.4k Jan 04, 2023
Adversarial Robustness Toolbox (ART) - Python Library for Machine Learning Security - Evasion, Poisoning, Extraction, Inference - Red and Blue Teams

Adversarial Robustness Toolbox (ART) is a Python library for Machine Learning Security. ART provides tools that enable developers and researchers to defend and evaluate Machine Learning models and ap

3.4k Jan 04, 2023
Hierarchical Aggregation for 3D Instance Segmentation (ICCV 2021)

HAIS Hierarchical Aggregation for 3D Instance Segmentation (ICCV 2021) by Shaoyu Chen, Jiemin Fang, Qian Zhang, Wenyu Liu, Xinggang Wang*. (*) Corresp

Hust Visual Learning Team 145 Jan 05, 2023
Hamiltonian Dynamics with Non-Newtonian Momentum for Rapid Sampling

Hamiltonian Dynamics with Non-Newtonian Momentum for Rapid Sampling Code for the paper: Greg Ver Steeg and Aram Galstyan. "Hamiltonian Dynamics with N

Greg Ver Steeg 25 Mar 14, 2022