← All skills

scrna-seq-qc

95 / 100 · Low risk

Fine to try.

By stanfish06/skillquarium (GitHub) · other · 12 stars · scanned at commit ced6c96

Process, quality-control, annotate, and visualize single-cell or single-nucleus RNA-seq datasets across tissues and species. Use when Codex needs to build, adapt, or review a general scRNA-seq QC pipeline; choose dataset-appropriate cell-level filters from QC distributions; run required scDblFinder-based doublet and ambient-RNA filtering; annotate cells with matched references or marker-based fallbacks; or generate global and per-group UMAP visualizations for large scRNA-seq datasets.

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/'scrna-seq-qc' ] || [ -L ~/.agents/skills/'scrna-seq-qc' ]; then echo 'A skill folder named scrna-seq-qc already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/stanfish06/skillquarium' "$d" && git -C "$d" checkout --quiet 'ced6c96bd67acccbf0280a5071e59a523c118c66' -- 'skills/scrna-seq-qc' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/scrna-seq-qc' ~/.agents/skills/'scrna-seq-qc' && 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/'scrna-seq-qc' ~/.claude/skills/'scrna-seq-qc' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

Badge for your README

The badge for stanfish06/skillquarium shows the score of its lowest-scoring skill.

[![SkillTrust](https://zalavijaysinh.github.io/skilltrust/badges/stanfish06/skillquarium.svg)](https://zalavijaysinh.github.io/skilltrust/repos/stanfish06/skillquarium/)

Score history