bio-crispr-screens-screen-qc SKILL.md skillA
bio-crispr-screens-screen-qc from pku-yuangroup/openai4s is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add pku-yuangroup/openai4s/bio-crispr-screens-screen-qc@git:20260821.2d1b678Pins git:20260821.2d1b678 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- pku-yuangroup/openai4s
- Path
skills/bioskills/bio-crispr-screens-screen-qc/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260821.2d1b678, committed Aug 21, 2026
- Size
- 23,778 bytes
- Repository stars
- 662
- License
- MIT
Quality control for pooled CRISPR screens covering library representation, Gini index, log-skew, replicate Pearson and Spearman concordance, essentialome precision-recall AUC against CEGv2 (Hart 2017), Cas9 cut-toxicity diagnostics, copy-number amplicon detection (Aguirre 2016 / Munoz 2016), bottleneck propagation through plasmid pool, infection, selection, and endpoint stages, MOI verification, and DepMap-style screen-quality scoring. Use when assessing screen quality before hit calling…
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
## Version Compatibility
Reference examples tested with: MAGeCK 0.5+ (count + VISPR), MAGeCKFlute 2.0+ (R), pandas 2.2+, numpy 1.26+, scikit-learn 1.4+, matplotlib 3.8+, seaborn 0.13+.
Before using code patterns, verify installed versions match. If versions differ:
- CLI: `mageck --version` then `mageck count --help`; R: `packageVersion('MAGeCKFlute')`
- R: `packageVersion('MAGeCKFlute')` then `?BatchRemove` / `?FluteRRA`
If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying.
## CRISPR Screen Quality Control
**"Audit my CRISPR screen quality before hit calling"** -> Assess library representation, replicate concordance, depth, drift, and biological signal recovery using DepMap-grade metrics, then decide whether the screen is usable, salvageable, or must be repeated.
- Python: `pandas` + `scikit-learn` for Gini, AUC, PCA; `MAGeCKFlute` (R) for one-shot QC dashboard
- CLI: `mageck count` writes Gini and mapping stats unconditionally to `<prefix>.countsummary.txt` (`GiniIndex`, `Reads`, `Mapped`, `Percentage`); MAGeCK-VISPR for an interactive dashboard
## QC Stage Hierarchy
…Read the whole file at its exact version.
How to install
mdr add pku-yuangroup/openai4s/bio-crispr-screens-screen-qc@sha256:053cf93cef2631b1The line at the top of this page pins the label git:20260821.2d1b678, 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_z734yknkp6fkep6p)
2 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 1 version of this file, committed on Aug 21, 2026.
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 (23778 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
pku-yuangroup/openai4s · 662 stars · license MIT · pushed 2026-11-03 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_z734yknkp6fkep6p GET https://markdownregistry.com/api/v1/resolve?ref=pku-yuangroup/openai4s/bio-crispr-screens-screen-qc GET https://markdownregistry.com/api/v1/blob/053cf93cef2631b1a918b46c422c5664b727128ac5d11e4fd1de328178e60821
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.