omicverse/omicverse

Health v2 · maintenance only

Adoption not part of the score

1193 stars · 147 forks observed · 2026-09-03

What it is AI-extracted, prompt v1, taxonomy v1, 2026-08-30, confidence not recorded

OmicVerse is a Python library for multi-omics analysis covering bulk, single-cell, and spatial RNA-seq workflows. It is part of the scverse ecosystem and provides an integrated toolkit for transcriptomic data analysis.

Use cases

• analyze single-cell rna-seq data in python
• bulk rna-seq differential expression analysis
• spatial transcriptomics analysis
• multi-omics integration pipeline
• cluster and annotate single-cell data
• process scRNA-seq count matrices

When to choose

• you need a unified Python toolkit spanning bulk, single-cell, and spatial transcriptomics
• you want scverse-ecosystem compatibility (AnnData/scanpy-style workflows)
• you need published, actively maintained omics analysis methods in one library

When to avoid

• you only need a lightweight single-purpose tool for one narrow analysis step
• your workflow is R/Seurat-based and you prefer Bioconductor packages
• GPL-3.0 licensing is incompatible with your project

Facets

library · maturity active

data-science machine-learning data-visualization bioinformatics data-science machine-learning python omics single-cell bulk-rna-seq spatial-transcriptomics scverse genomics multi-omics

Member repositories

For agents

markdown · JSON · MCP: product_card(name="omicverse/omicverse")