scanpy
About
Scanpy provides a comprehensive Python toolkit for standard single-cell RNA-seq analysis pipelines, including QC, normalization, dimensionality reduction, clustering, and visualization. It's best for exploratory analysis using established workflows with AnnData-based data. Use scvi-tools for deep learning models instead.
Quick Install
Claude Code
Recommendednpx skills add mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- -a claude-code/plugin add https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills-git clone https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills-.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 mdbabumiamssm. 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, design and data.
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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