scverse

Foundational tools for omics data in the life sciences

Welcome to scverse®!

scverse® is a community that develops and maintains foundational tools for single-cell omics data analysis in primarily Python.

Here's how to get started:

scanpy scanpy Public

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

Python 2.3k 691
anndata anndata Public

Annotated data.

Python 699 180
scvi-tools scvi-tools Public

Deep probabilistic analysis of single-cell and spatial omics data

Python 1.5k 434
squidpy squidpy Public

Spatial Single Cell Analysis in Python

Python 547 101
spatialdata spatialdata Public

An open and interoperable data framework for spatial omics data

Python 338 79
scirpy scirpy Public

A scanpy extension to analyse single-cell TCR and BCR data.

Python 244 41