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bio-rna-quantification-tximport-workflow

100 / 100 · Low risk

Fine to try.

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

Import transcript-level quantifications from Salmon/kallisto/RSEM into R for gene-level analysis with DESeq2/edgeR using tximport or tximeta. Use when summarizing transcript abundances to gene counts with the correct length offset, choosing a countsFromAbundance mode (full-length vs 3'-tag vs DTU), resolving transcript-ID version mismatches, or handing off to DESeq2/edgeR without double-applying the offset.

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/'bio-rna-quantification-tximport-workflow' ] || [ -L ~/.agents/skills/'bio-rna-quantification-tximport-workflow' ]; then echo 'A skill folder named bio-rna-quantification-tximport-workflow 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 "$d" checkout --quiet '908229c955510a1841b216e8bf58f6b22818d4dc' -- 'skills/bio-rna-quantification-tximport-workflow' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bio-rna-quantification-tximport-workflow' ~/.agents/skills/'bio-rna-quantification-tximport-workflow' && 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-rna-quantification-tximport-workflow' ~/.claude/skills/'bio-rna-quantification-tximport-workflow' (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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