omicverse / omicverse

A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.

scverse / scanpy

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

scverse / scvi-tools

Deep probabilistic analysis of single-cell and spatial omics data

cafferychen777 / mLLMCelltype

Cell type annotation for single-cell RNA-seq using multi-LLM consensus

scverse / squidpy

Spatial Single Cell Analysis in Python

oncologylab / fp-tools

Command-first ATAC-seq footprinting, motif analysis, and reproducible interactive reports

sagirimo / BioDSH

The bioinformatics agent desktop for clinicians and wet-lab scientists — built on DeepSeek Harness. One-click installers, a skill store, offline mode.

HERRY423 / BioNexus

Scientific reliability layer for AI-assisted biology: evaluates what evidence warrants, caps unsupported claims, audits analytical validity, and prevents silent scientific overreach.