Deep Generative Model Python Packages

scvi-tools

Deep probabilistic analysis of single-cell and spatial omics data

scvi

Deep probabilistic analysis of single-cell and spatial omics data

causalegm

A General Causal Inference Framework by Encoding Generative Modeling

scmidas

PyTorch implementation of the MIDAS algorithm for single-cell multimodal data integration (Nature Biotechnology 2024).

bulkdgd

Code, documentation, and tutorials for the DGD model trained on bulk RNA-Seq data.

pyroundtrip

Roundtrip: density estimation with deep generative neural networks

scvega

VEGA: VAE Enhanced by Gene Annotations