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bulk-rnaseq

80 / 100 · Low risk

Fine to try.

By boisenoise/skills-collections (GitHub) · data · 12 stars · scanned at commit 419c39f

Prepares bulk RNA-seq FASTQ, Salmon, STAR or featureCounts output for gene-level differential expression. Covers nf-core/rnaseq and standalone quantification, biological replication, strandedness, reference provenance, validated count assembly and a PyDESeq2 handoff. Use for FASTQ-to-counts analysis, nf-core/rnaseq configuration, STAR/Salmon quantification, or building a counts matrix for DESeq2. For single-cell data use scanpy; for statistical fitting alone use pydeseq2.

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/'bulk-rnaseq' ] || [ -L ~/.agents/skills/'bulk-rnaseq' ]; then echo 'A skill folder named bulk-rnaseq already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/boisenoise/skills-collections' "$d" && git -C "$d" checkout --quiet '419c39fde874b8baecbb36a397b967e0190a2ece' -- 'skills/kdense-bulk-rnaseq' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/kdense-bulk-rnaseq' ~/.agents/skills/'bulk-rnaseq' && 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/'bulk-rnaseq' ~/.claude/skills/'bulk-rnaseq' (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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Score history

Also found in

Identical copies of this skill exist at:

• LeoYeAI/agent-master-skills/skills/bulk-rnaseq