Data & ReproBioinformatics & GenomicsFreedomIntelligence/OpenClaw-Medical-SkillsData & Reproduction

bio-workflows-gwas-pipeline

Maintainer FreedomIntelligence · Last updated April 1, 2026

GWAS: QC → imputation → association → fine-mapping → annotation.

OpenClawNanoClawAnalysisReproductionbio-workflows-gwas-pipeline🧠 bioos extended suitebioos extended bioinformatics suitegwas

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-workflows-gwas-pipeline

Maintainer: FreedomIntelligence
License: MIT
Last updated: April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

Complete workflow for genome-wide association studies from genotype data to significant associations.
plink2 --vcf input.vcf.gz \ --make-bed \ --out study.

Source Doc

Excerpt From SKILL.md

Or with phenotype/covariate files

plink2 --vcf input.vcf.gz
--pheno phenotypes.txt
--make-bed
--out study


## Calculate sample statistics

plink2 --bfile study \
    --missing \
    --out study_stats

## Remove samples with high missing rate (>5%)

plink2 --bfile study \
    --mind 0.05 \
    --make-bed \
    --out study_sample_qc

Use cases

Use bio-workflows-gwas-pipeline for genomics and bioinformatics workflows.
Apply bio-workflows-gwas-pipeline to sequencing, variant, or omics analysis tasks.