mageck SKILL.md skillA
mageck from k-dense-ai/scientific-agent-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add k-dense-ai/scientific-agent-skills/mageck@v1.1Pins v1.1 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- k-dense-ai/scientific-agent-skills
- Path
skills/mageck/SKILL.md- Versions recorded
- 2
- Latest version
- v1.1, committed Oct 1, 2026
- First version recorded
- Sep 30, 2026
- Size
- 8,610 bytes
- Repository stars
- 56,497
- License
- MIT
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.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# MAGeCK pooled-screen analysis ## When to use Use this skill to count existing sequencing reads against a supplied guide library or compare already-counted pooled screens. Deliver the count matrix, QC, guide and gene results, contrast provenance, and a short interpretation of enrichment/depletion. This workflow analyzes screens; it does not design guides or infer gene function from a hit alone. ## Runtime The tested source installation and external-runtime caveat are in [references/runtime.md](references/runtime.md). Verify both `mageck --version` and `mageck test --help` before an analysis. The bundled Python helper is standard-library only. MAGeCK itself also needs NumPy, SciPy, and the `RRA` binary. PDF/R reporting is optional and not needed by the helper. The [official release directory](https://sourceforge.net/projects/mageck/files/0.5/) still lists 0.5.9.5 as its latest MAGeCK release. Upstream now links the separate [MAGeCK2 project](https://github.com/davidliwei/mageck2); these commands and the helper target MAGeCK 0.5.9.5, not an interchangeable MAGeCK2 installation. This is a local CLI workflow with no service API or authentication. ## Workflow …
Read the whole file at its exact version.
How to install
mdr add k-dense-ai/scientific-agent-skills/mageck@sha256:562d7e2cb2febef1The line at the top of this page pins the label v1.1, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_q4nmpgym5r4dmoso)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 2 versions of this file, between Sep 30, 2026 and Oct 1, 2026, more than one a day.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| v1.1 latest | 2026-10-01 | a92663a | 8,610 B | A | view · diff |
| v1.0 | 2026-09-30 | 9c044a1 | 6,343 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (8610 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
k-dense-ai/scientific-agent-skills · 56,497 stars · license MIT · pushed 2026-11-02 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_q4nmpgym5r4dmoso GET https://markdownregistry.com/api/v1/resolve?ref=k-dense-ai/scientific-agent-skills/mageck GET https://markdownregistry.com/api/v1/blob/562d7e2cb2febef14ab722bc29cd33983b523da287fb02b64eadf18702d4a9d1
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.