bio-workflows-causal-genomics-pipeline

Name: bio-workflows-causal-genomics-pipeline
Rating: 5 (1 reviews)
Author: bg-szy

End-to-end post-GWAS causal inference pipeline orchestrating heritability partitioning, genetic correlation, Mendelian randomization with CHP-aware sensitivity (CAUSE / LHC-MR), colocalization, fine-mapping with SuSiE / FOCUS, mediation, TWAS triangulation, cis-pQTL drug-target MR, effector-gene prioritization (L2G / PoPS / cS2G), and GenomicSEM common-factor GWAS. Use when triangulating causal in

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Updated 15 days ago

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Version Compatibility

Reference examples tested with: TwoSampleMR 0.5+, MR-PRESSO 1.0+, coloc 5.2+, susieR 0.12+, MendelianRandomization 0.9+, ldsc 1.0.1 (python3 fork), MetaXcan 0.7+, pyfocus 0.6+, MAGMA 1.10+, MRlap 0.0.3+, cause 1.2+, lhcMR 0.0.0.9000+, HDL 1.4+, LAVA 0.1+, GenomicSEM 0.0.5+.

Before using code patterns, verify installed versions match. If versions differ: