About
The scanpy skill provides a complete single-cell RNA-seq analysis pipeline for developers working with scRNA-seq data. It handles standard workflows including QC, normalization, dimensionality reduction (PCA/UMAP/t-SNE), clustering, and visualization. Use this skill for exploratory analysis of single-cell data in established Python-based workflows.
Quick Install
Claude Code
Recommendednpx skills add boisenoise/skills-collections -a claude-code/plugin add https://github.com/boisenoise/skills-collectionsgit clone https://github.com/boisenoise/skills-collections.git ~/.claude/skills/scanpyCopy and paste this command in Claude Code to install this skill
GitHub Repository
Frequently asked questions
What is the scanpy skill?
scanpy is a Claude Skill by boisenoise. Skills package instructions and resources that Claude loads on demand, so Claude can perform scanpy-related tasks without extra prompting.
How do I install scanpy?
Use the install commands on this page: add scanpy to Claude Code as a plugin, or clone its repository into your skills directory, then restart Claude so it picks up the skill.
What category does scanpy belong to?
scanpy is in the Design category, tagged automation and design.
Is scanpy free to use?
Yes. scanpy is listed on AIMCP and free to install. It runs inside Claude, so no separate service account is required to use the skill itself.
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