TCGAbiolinks

Natural language processing of Gene Expression Omnibus data

Colocalization analysis of genetic association signals

Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and CyTOF data

An unsupervised approach for the integrative analysis of single-cell multi-omics data

Tool for integrative gene-based association analysis using GWAS summary stats

A Decomposition-based Canonical Correlation Analysis for High-dimensional Datasets (JASA-20 paper)

🕸 Network-based multi-omic integration of metabolomics data.

A Python package for metabolite enrichment analysis.

MONTI is a tool for analyzing large multi-omics cancer cohort data in association with clinical featuers

The statistical utility for RBP functions (SURF)

Code for Walker, Saunders, Rai et al., (2021).

Repository for the MetaBridge Shiny app.

Integrative analysis for epigenomic sequencing data

Hidden Markov Random Field Model - Inferring Gene-Disease Association by an Integrative Analysis of eQTL GWAS and Protein-Protein Interaction data

Penalized regression for multiple types of many features with missing data using expectation-maximization (EM) algorithm.

MATLAB and R Code for sparse GCA