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cellxgene-census

80 / 100 · Low risk

Fine to try.

By lamm-mit/scienceclaw (GitHub) · data · 251 stars · scanned at commit 894598c

Query the CELLxGENE Census (61M+ cells) programmatically. Use when you need expression data across tissues, diseases, or cell types from the largest curated single-cell atlas. Best for population-scale queries, reference atlas comparisons. For analyzing your own data use scanpy or scvi-tools.

Works with any agent that supports SKILL.md skills.

What this skill can do

Install

Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.

if [ -e ~/.agents/skills/'cellxgene-census' ] || [ -L ~/.agents/skills/'cellxgene-census' ]; then echo 'A skill folder named cellxgene-census already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/lamm-mit/scienceclaw' "$d" && git -C "$d" checkout --quiet '894598cd3a90891a077c254566276bd379038bad' -- 'skills/cellxgene-census' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/cellxgene-census' ~/.agents/skills/'cellxgene-census' && rm -rf "$d"; fi

Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'cellxgene-census' ~/.claude/skills/'cellxgene-census' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

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