bio-causal-genomics-genomic-sem SKILL.md skillA
bio-causal-genomics-genomic-sem 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-causal-genomics-genomic-sem@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-causal-genomics-genomic-sem/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260821.2d1b678, committed Aug 21, 2026
- Size
- 33,114 bytes
- Repository stars
- 662
- License
- MIT
Fits structural equation models to GWAS summary statistics using GenomicSEM (Grotzinger 2019), including common-factor models, confirmatory factor models, ESEM, common-factor GWAS with Q_SNP heterogeneity, multivariate Wald tests, and stratified GenomicSEM partitioned heritability. Reconciles results against MTAG multi-trait analysis. Handles sample overlap via the LDSC sampling-covariance matrix, identifies and resolves Heywood cases, and verifies model fit with CFI / RMSEA. Use when modeling…
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: GenomicSEM 0.0.5+ (GitHub `GenomicSEM/GenomicSEM`), lavaan 0.6-17+, LDSC v1.0.1+ (Python 3; prefer `abdenlab/ldsc-python3` v2.0.0 -- `belowlab/ldsc` v3.0.1 README states the CLI is broken; Docker `jtb114/ldsc:latest` is the belowlab fallback), baselineLD_v2.2 annotations (alkesgroup.broadinstitute.org/LDSCORE), MTAG 1.0.8+ (Python; `JonJala/mtag`), R 4.4+.
Before using code patterns, verify installed versions match. If versions differ:
- R: `packageVersion('GenomicSEM')` then `?ldsc`, `?commonfactor`, `?usermodel`, `?commonfactorGWAS`
- Python (LDSC, MTAG): `<tool>.py -h` and inspect the source under `ldsc/` or `mtag/`
GenomicSEM is GitHub-only (never on CRAN). If `ldsc()` or `usermodel()` throws an error about lavaan syntax or non-positive-definite covariance, introspect the installed API (`getMethod('ldsc')`) and adapt rather than retrying.
# Genomic SEM
…Read the whole file at its exact version.
How to install
mdr add pku-yuangroup/openai4s/bio-causal-genomics-genomic-sem@sha256:05bad8d5580e00edThe 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_emivionuhv5io2cm)
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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: 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_emivionuhv5io2cm GET https://markdownregistry.com/api/v1/resolve?ref=pku-yuangroup/openai4s/bio-causal-genomics-genomic-sem GET https://markdownregistry.com/api/v1/blob/05bad8d5580e00ed704206855343c74a146ef74430033b96c1ab021458b628b5
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.