bio-causal-genomics-heritability-partitioning skillA
bio-causal-genomics-heritability-partitioning is agent-read markdown (skill) from pku-yuangroup/openai4s: Estimates SNP heritability and partitions it across functional annotations, cell types, and loci from GWAS summary statistics or individual-level genotypes. Implements LDSC, stratified LDSC with the baseline-LD model, Finucane 2018 cell-type prioritization, LDAK SumHer, HDL, HESS local heritability, BOLT-REML, GCTA-GREML, graphREML, and Popcorn cross-population genetic correlation. Use when computing total h2_SNP from summary stats, partitioning heritability across functional categories, priorit.
Indexed from public GitHub and served as immutable, content-addressed versions. Install it pinned to an exact SHA-256 with the mdr CLI, and every file is verified against the hash recorded here before it reaches your agent. The deterministic audit below grades the latest version, and the same file always earns the same grade.
What the file says
## Version Compatibility
Reference examples tested with: LDSC v1.0.1+ (Python 3 fork; prefer `abdenlab/ldsc-python3` v2.0.0 which retains the working `--h2 / --rg / --h2-cts` CLI -- `belowlab/ldsc` v3.0.1 explicitly broke that CLI per its README and is best run via Docker `jtb114/ldsc:latest`), LDAK 6.0+, BOLT-LMM 2.4.1+, GCTA 1.94+, HESS 0.5.4+, HDL 1.4.0+ (R; GitHub `zhenin/HDL`), Popcorn 1.0+ (Python; brielin/Popcorn), baselineLD_v2.2 annotations (alkesgroup.broadinstitute.org/LDSCORE).
Before using code patterns, verify installed versions match. If versions differ:
- Python: `pip show <package>` then `python3 -c 'import <module>; help(<module>)'`
- R: `packageVersion('<pkg>')` then `?function_name`
- CLI: `<tool> --version` then `<tool> --help`
LDSC's official repository (bulik/ldsc) is Python 2.7 only and unmaintained since 2019; use the Python 3 community forks. If code throws ImportError, AttributeError, or a "category not found" error in the LD score file, introspect the installed binary and the actual LD-score column headers rather than retrying.
# Heritability Partitioning
…Read the whole file at its exact version.
How to install
mdr add pku-yuangroup/openai4s/bio-causal-genomics-heritability-partitioning@git:20260821.2d1b678mdr add pku-yuangroup/openai4s/bio-causal-genomics-heritability-partitioning@sha256:ec495372e522fdfePin to a label to follow the author's releases, or to a sha256 to freeze the exact bytes forever. Either way the resolved hash is written to mdr.lock, and mdr install reproduces it on any machine.
[](https://markdownregistry.com/a/art_yzizlynbywy4crhe)
1 badge views in 30 days
Versions
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 (35657 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 · 586 stars · license MIT · pushed 2026-09-23 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_yzizlynbywy4crhe GET https://markdownregistry.com/api/v1/resolve?ref=pku-yuangroup/openai4s/bio-causal-genomics-heritability-partitioning GET https://markdownregistry.com/api/v1/blob/ec495372e522fdfead9faef79f3dc492ca6c555798206039bef26aec0e591d06
Your agent 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.