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batch-effect-correction

95 / 100 · Low risk

Fine to try.

By aipoch/openscience-specialist-marketplace (GitHub) · other · 10 stars · scanned at commit 88ca6e1

Use when correcting batch effects in merged bulk expression matrices with sample-level batch metadata while preserving biological group structure and generating before-and-after QC plots. NOT for: single-cell integration, raw FASTQ processing, differential expression without batch labels, or datasets without biological groups.

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/'batch-effect-correction' ] || [ -L ~/.agents/skills/'batch-effect-correction' ]; then echo 'A skill folder named batch-effect-correction already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/aipoch/openscience-specialist-marketplace' "$d" && git -C "$d" checkout --quiet '88ca6e1772cb97189d56ad68346cc86268116f6b' -- 'specialists/auto-research-specialist/versions/1.0.1/package/skills/batch-effect-correction' && mkdir -p ~/.agents/skills && cp -R "$d"/'specialists/auto-research-specialist/versions/1.0.1/package/skills/batch-effect-correction' ~/.agents/skills/'batch-effect-correction' && 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/'batch-effect-correction' ~/.claude/skills/'batch-effect-correction' (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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