ukbb-meta

Summary

A DNAnexus wdl pipeline to perform exome-wide association tests across multiple cohorts and meta-analyse these combined associations.

Usage

cd wdl
bash run_workflow.sh

Requirements

• dxCompiler
• dx-toolkit

Cohort Specific Inputs:

• Genotype path: DNAnexus path containing genotype plink files
• Exome path: DNAnexus path containing exome plink files
• Annotations file
• Phenotype list

Docker Files

SAIGE docker file saved in wes_450k/ukbb-meta/docker/

Rare_Variant_Meta docker file pulled from https://ghcr.io/barneyhill/rare_variant_meta:release