About
This skill provides a standard Python pipeline for single-cell RNA-seq analysis using scanpy. It handles QC, normalization, dimensionality reduction, clustering, differential expression, and visualization for exploratory analysis. Use it for established scRNA-seq workflows, but switch to scvi-tools for deep learning models.
Quick Install
Claude Code
Recommendednpx skills add oimiragieo/agent-studio -a claude-code/plugin add https://github.com/oimiragieo/agent-studiogit clone https://github.com/oimiragieo/agent-studio.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 oimiragieo. 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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