mageck

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Check before installing.

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

Analyzes pooled CRISPR screen FASTQ reads and guide-count matrices with MAGeCK, validates guide libraries and contrasts, measures replicate and library QC, and produces gene hit rankings with effect sizes and FDR. Use for new knockout, CRISPRi, or CRISPRa screen analysis, enrichment or depletion contrasts, and MAGeCK count/test workflows; existing public dependency-score lookup belongs to DepMap.

Works with any agent that supports SKILL.md skills.

What this skill can do

Runs commands on your computer

The author does not mention this.

Found in 3 places.

skills/kdense-mageck/SKILL.md, line 90mageck count -l library.tsv --fastq c1.fastq.gz c2.fastq.gz t1.fastq.gz t2.fastq.gz \
skills/kdense-mageck/scripts/screen_analysis.py, line 198version = subprocess.run([binary, "--version"], text=True, capture_output=True, check=True).stdout.strip()
skills/kdense-mageck/scripts/screen_analysis.py, line 211process = subprocess.run(command, cwd=work, capture_output=True, text=True, check=False)

Downloads and installs other software

The author does not mention this.

Found in 1 place.

skills/kdense-mageck/references/runtime.md, line 14uv pip install --python mageck-env/bin/python numpy==1.26.4 scipy==1.13.1 setuptools==69.5.1

Sends data to these websites: sourceforge.net

This is disclosed by the author in the skill's SKILL.md or README.

Found in 1 place.

skills/kdense-mageck/references/runtime.md, line 15curl -fL 'https://sourceforge.net/projects/mageck/files/0.5/mageck-0.5.9.5.tar.gz/download' -o mageck.tar.gz

Safer alternatives

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

80 Low riskmageck-analysismdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- · 36 stars

Install

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

if [ -e ~/.agents/skills/'mageck' ] || [ -L ~/.agents/skills/'mageck' ]; then echo 'A skill folder named mageck 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 "$d" checkout --quiet '419c39fde874b8baecbb36a397b967e0190a2ece' -- 'skills/kdense-mageck' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/kdense-mageck' ~/.agents/skills/'mageck' && 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/'mageck' ~/.claude/skills/'mageck' (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

Date	Version	Score
2026-11-12	`419c39f`	77
2026-11-08	`5fe45e5`	77
2026-11-06	`b89b2f5`	77

Also found in

Identical copies of this skill exist at:

LeoYeAI/agent-master-skills/skills/mageck