primed_consortia_legacy_benchmarking_project
plink2_filter_maf
Overview
plink2_filter_maf.wdl is a WDL workflow for filtering PLINK2 genotype datasets by minor allele frequency (MAF) on a per-chromosome basis and then combining the filtered variant IDs into a single text file.
This workflow is registered in Dockstore via .dockstore.yml as the plink2_filter_maf WDL workflow.
Workflow summary
The workflow:
- Accepts parallel arrays of PLINK2 input files (
.pgen, `.pvar
This is a companion discussion topic for the original entry at github.com/manning-lab/primed_consortia_legacy_benchmarking_project/plink2_filter_maf