muon is a multimodal omics Python framework

Multimodal Data (.h5mu) implementation for Python

Multi-task deep learning framework for multi-omics data analysis

Single-cell multi-omics integration using Optimal Transport

A bioinformatics API to interface with public multi-omics bio databases for wicked fast data integration.

Disease subnetwork detection with explainable Graph Neural Networks

Flexible omics pipeline

HiCFoundation is a generalizable Hi-C foundation model for chromatin architecture, single-cell and multi-omics analysis across species.

gNOMO2 allows integrated multi-omics analyses of microbiomes

factor models for omics data

The SUbgraph BAsed mulTI-OMIcs Clustering (SUBATOMIC) framework infers interpretable modules with a specific topology.

Depicting pseudotime-lagged causality for accurate gene-regulatory inference

Accompanying code for Image2Omics

DeepResponse: Large Scale Prediction of Cancer Cell Line Drug Response with Deep Learning Based Pharmacogenomic Modelling

Data and scripts to reproduce experiments for Mowgli.

Code for the paper "scBridge embraces cell heterogeneity in single-cell RNA-seq and ATAC-seq data integration"

Multimodal datasets, in MuData format

Python API to manage multi-omics digital objects

Python implementation of NetICS (Network-based Integration of Multi-omics data).

DeepResponse: Large Scale Prediction of Cancer Cell Line Drug Response with Deep Learning Based Pharmacogenomic Modelling