bio-causal-genomics-mendelian-randomization skillA
bio-causal-genomics-mendelian-randomization is agent-read markdown (skill) from pku-yuangroup/openai4s: Estimate causal effects of an exposure on an outcome from GWAS summary statistics using genetic instruments. Implements IVW (fixed/random), MR-Egger, weighted median/mode, MR-RAPS, CAUSE, GSMR-HEIDI, MR-PRESSO, MVMR, MR-Clust, LCV, and LHC-MR via TwoSampleMR, MendelianRandomization, MR-PRESSO, cause, and lhcMR. Use when testing causal direction between traits, evaluating drug-target effects via cis-pQTL/cis-eQTL, performing multivariable mediation MR, distinguishing causation from correlated hor.
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: TwoSampleMR 0.6.0+, MendelianRandomization 0.10+, MR-PRESSO 1.0+, cause 1.2+, MVMR 0.4+, ieugwasr 1.0+, MRlap 0.0.3.2+, coloc 5.2+, mrclust 0.1+, lhcMR 0.0.1+, R 4.4+. Both TwoSampleMR 0.6.0 and ieugwasr 1.0 are the JWT-transition versions; older versions still expect deprecated OAuth.
Before using code patterns, verify installed versions match. If versions differ:
- R: `packageVersion('<pkg>')` then `?function_name` to verify parameters
- CLI (plink, GCTA-GSMR): `<tool> --version` then `<tool> --help`
If code throws an error referencing a function that has moved (e.g. `ieugwasr::ld_clump` vs `TwoSampleMR::clump_data`) or an OAuth token failure, introspect the installed API and adapt the example rather than retrying.
# Mendelian Randomization
…Read the whole file at its exact version.
How to install
mdr add pku-yuangroup/openai4s/bio-causal-genomics-mendelian-randomization@git:20260821.2d1b678mdr add pku-yuangroup/openai4s/bio-causal-genomics-mendelian-randomization@sha256:4e771465992d1d21Pin 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_ksfpskdriyjwafoj)
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Versions
Audit of the latest version
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Source
pku-yuangroup/openai4s · 586 stars · license MIT · pushed 2026-09-23 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_ksfpskdriyjwafoj GET https://markdownregistry.com/api/v1/resolve?ref=pku-yuangroup/openai4s/bio-causal-genomics-mendelian-randomization GET https://markdownregistry.com/api/v1/blob/4e771465992d1d21fb4afeed6963daa6b3f65c81c3a7aea182d49fa57279af1a
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