scverse / scanpy

Single-cell analysis in Python. Scales to >100M cells.

scverse / scvi-tools

Deep probabilistic analysis of single-cell and spatial omics data

scverse / gget

🧬 gget enables efficient querying of genomic reference databases

scverse / anndata

Annotated data.

scverse / PyDESeq2

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

scverse / squidpy

Spatial Single Cell Analysis in Python