bio-population-genetics-association-testing SKILL.md skillA
bio-population-genetics-association-testing from fridrichmethod/awesome-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fridrichmethod/awesome-skills/bio-population-genetics-association-testing@git:20260614.5d4591cPins git:20260614.5d4591c in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- fridrichmethod/awesome-skills
- Path
skills/association-testing/SKILL.md- Versions recorded
- 3
- Latest version
- git:20260614.5d4591c, committed Jun 14, 2026
- First version recorded
- May 17, 2026
- Size
- 19,307 bytes
- Repository stars
- 15
- License
- a license file GitHub does not identify
Single-variant common-variant GWAS with plink2 --glm (linear/logistic, Firth) and the linear mixed models GEMMA, BOLT-LMM, SAIGE, regenie (SPA). A GWAS statistic is valid only when genotype is independent of unmodeled phenotype drivers after the chosen covariates and random effects, so the engine follows sample structure and case:control imbalance, not taste: PC covariates absorb continuous ancestry but cannot remove relatedness (a covariance structure needing an LMM), genomic inflation above…
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: PLINK 2.0 (alpha 6+), SAIGE 1.3+, regenie 3.4+, BOLT-LMM 2.4+, GEMMA 0.98+, numpy 1.26+, pandas 2.2+, scipy 1.12+. Before using code patterns, verify installed versions match. If versions differ: - Python: `pip show <package>` then `help(module.function)` to check signatures - CLI: `<tool> --version` then `<tool> --help` to confirm flags If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. Version traps that change results, not just syntax: PLINK 2.0 `--glm firth-fallback` is the DEFAULT for binary traits and writes `.glm.logistic.hybrid` (mixed logistic and Firth rows), not `.glm.logistic`. SAIGE `--LOCO=TRUE` is the recommended default and the step-1 and step-2 sample IDs plus variance-ratio file must match exactly. regenie applies Firth/SPA only when `--firth`/`--spa` are explicitly set in step 2 (not automatic for every variant). BOLT-LMM is calibrated only for quantitative traits at large N (case fraction >= 10%, MAF > 0.1% for binary coding). The single source of truth for versions is this block, not headings. …
Read the whole file at its exact version.
How to install
mdr add fridrichmethod/awesome-skills/bio-population-genetics-association-testing@sha256:ff3f04ed6e58a78cThe line at the top of this page pins the label git:20260614.5d4591c, 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_c5iyl2ojptmqtl3v)
1 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 3 versions of this file, between May 17, 2026 and Jun 14, 2026, about one every 14 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260614.5d4591c latest | 2026-06-14 | 5d4591c | 19,307 B | A | view · diff |
| git:20260531.6e617c4 | 2026-05-31 | 6e617c4 | 7,764 B | A | view · diff |
| git:20260517.81511a7 | 2026-05-17 | 81511a7 | 7,765 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 (19307 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
fridrichmethod/awesome-skills · 15 stars · license a license file GitHub does not identify · pushed 2026-10-18 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_c5iyl2ojptmqtl3v GET https://markdownregistry.com/api/v1/resolve?ref=fridrichmethod/awesome-skills/bio-population-genetics-association-testing GET https://markdownregistry.com/api/v1/blob/ff3f04ed6e58a78c2f194e18067fe7bce38ce6098a5f3a0d529d7fcf8580ea48
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.