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bio-workflow-management-nf-core-pipelines

77 / 100 · Review before installing

Check before installing. Some of what it can do is expected: a devops skill usually runs commands, installs tools and uses cloud credentials.

By lilinji/GeneTind-Life-Skills (GitHub) · devops · 17 stars · scanned at commit 908229c

Runs and configures curated nf-core community Nextflow pipelines (rnaseq, sarek, atacseq, methylseq, ampliseq, taxprofiler, fetchngs) reproducibly, pinning the pipeline revision with -r and selecting a container engine and institutional config via -profile. Use when deciding to adopt a community pipeline versus author one from scratch; picking a pipeline and pinning its -r revision; selecting -profile test/docker/singularity/conda plus an institutional config from nf-core/configs; building and …

Works with any agent that supports SKILL.md skills.

What this skill can do

Safer alternatives

Low-risk skills in the same category (devops) that look related. Check that one does what you need.

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• 100 Low riskBuilding CI/CD PipelinesBbgnsurfTech/claude-skills-collection · 29 stars

Install

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

if [ -e ~/.agents/skills/'bio-workflow-management-nf-core-pipelines' ] || [ -L ~/.agents/skills/'bio-workflow-management-nf-core-pipelines' ]; then echo 'A skill folder named bio-workflow-management-nf-core-pipelines already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/lilinji/GeneTind-Life-Skills' "$d" && git -C "$d" checkout --quiet '908229c955510a1841b216e8bf58f6b22818d4dc' -- 'skills/bio-workflow-management-nf-core-pipelines' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bio-workflow-management-nf-core-pipelines' ~/.agents/skills/'bio-workflow-management-nf-core-pipelines' && 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/'bio-workflow-management-nf-core-pipelines' ~/.claude/skills/'bio-workflow-management-nf-core-pipelines' (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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