bio-crispr-screens-in-vivo-screens SKILL.md skillA
bio-crispr-screens-in-vivo-screens 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-in-vivo-screens@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-in-vivo-screens/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260821.2d1b678, committed Aug 21, 2026
- Size
- 14,982 bytes
- Repository stars
- 662
- License
- MIT
Designs and analyzes in vivo CRISPR screens in animal tumor models, organoids, and immune-cell adoptive transfers. Covers bottleneck math (250x cells/sgRNA requires ~25M cells implanted; impossible for most syngeneic models, forcing focused libraries), focused library design (Manguso 2017 Nature 547:413 immune screen; Chen 2015 tumor screens), CRISPR-StAR intrinsic-control screening (Uijttewaal 2025 Nat Biotechnol 43:1848), clonal-dynamics-limited detection, tumor-explant DNA recovery…
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 0.5.9+, MAGeCK-VISPR 0.5.6+, pandas 2.2+, numpy 1.26+. Before using code patterns, verify installed versions match. If versions differ: - CLI: `mageck --version` - Reference focused libraries: Manguso 2017, Chen 2015, public Addgene aliquots If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. ## In Vivo CRISPR Screen Analysis **"Design or analyze an in vivo CRISPR screen"** -> Account for the dramatic bottleneck during animal implantation and tumor growth; use focused libraries; recover DNA from tumor explants; analyze with bottleneck-adjusted hit calling. - CLI: `mageck count` + `mageck test` for standard analysis - Special handling: bottleneck-adjusted coverage thresholds; per-tissue per-animal replicate structure ## The In Vivo Bottleneck Problem **Why in vivo screens differ from in vitro:** | Constraint | In vitro | In vivo | |------------|----------|---------| | Cells per condition | 10M-100M (unlimited) | Limited by injection volume (1-5M cells typical) | …
Read the whole file at its exact version.
How to install
mdr add pku-yuangroup/openai4s/bio-crispr-screens-in-vivo-screens@sha256:551423177c969421The 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_uw4irspthgdvxu2d)
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Versions
The registry has recorded 1 version of this file, committed on Aug 21, 2026.
Audit of the latest version
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- pass: Size between 200 bytes and 200 KB (14982 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_uw4irspthgdvxu2d GET https://markdownregistry.com/api/v1/resolve?ref=pku-yuangroup/openai4s/bio-crispr-screens-in-vivo-screens GET https://markdownregistry.com/api/v1/blob/551423177c969421e965e9869e9178075c5c1d28fbfd0050a15025de7e2ad5c2
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.