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harmonypy

100 / 100 · Low risk

Fine to try.

By stanfish06/skillquarium (GitHub) · data · 12 stars · scanned at commit f748ea9

Harmony batch correction for single-cell data in scanpy workflows, with scvi-tools as the heavier alternative. Use when integrating scRNA-seq or single-cell multi-sample embeddings across batches, donors, chemistries, or experiments using harmonypy or Scanpy's Harmony integration.

Works with any agent that supports SKILL.md skills.

What this skill can do

We found nothing in the files we read that matches our rules. That does not prove the skill is safe: see the limits of static scanning.

Install

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

if [ -e ~/.agents/skills/'harmonypy' ] || [ -L ~/.agents/skills/'harmonypy' ]; then echo 'A skill folder named harmonypy already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/stanfish06/skillquarium' "$d" && git -C "$d" checkout --quiet 'f748ea91aa51ce8fc42c27c809dba73a8377b1d5' -- 'skills/harmonypy' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/harmonypy' ~/.agents/skills/'harmonypy' && 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/'harmonypy' ~/.claude/skills/'harmonypy' (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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