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nf-core Pipelines Skills Index

95 / 100 · Low risk

Fine to try.

By BioTender-max/awesome-bio-agent-skills (GitHub) · design · 219 stars · scanned at commit 8cbdd18

Skills for using nf-core community pipelines to process omics data, from installation and configuration to running specific analysis pipelines.

Works with any agent that supports SKILL.md skills.

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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/'nf-core-pipelines-skills-index' ] || [ -L ~/.agents/skills/'nf-core-pipelines-skills-index' ]; then echo 'A skill folder named nf-core-pipelines-skills-index already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/BioTender-max/awesome-bio-agent-skills' "$d" && git -C "$d" checkout --quiet '8cbdd18837aa6296c4e77616a03b323bd69b57b1' -- 'skills/pantheon/nfcore' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/pantheon/nfcore' ~/.agents/skills/'nf-core-pipelines-skills-index' && 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/'nf-core-pipelines-skills-index' ~/.claude/skills/'nf-core-pipelines-skills-index' (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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