This workflow prunes variants to a subset not in linkage disequilibrium (LD) with each other
and creates a new GDS file containing only the independent variants.
LD is a measure of correlation of genotypes between a pair of variants. The pruning process
filters variants so that those that remain have LD measures below a
given threshold. This procedure is typically used to identify a (nearly) independent subset of
variants. This is often the first step in evaluating relatedness and population
This is a companion discussion topic for the original entry at github.com/UW-GAC/genesis-workflow/ld-pruning