Create new index from existing index using a subset of rsids

Note this requires a modified version of plink that allows ld-window-r2 flag for –r option. Available here: https://github.com/explodecomputer/plink-ng

Usage

create_rsidx_sub_index(rsid, rsidx, newindex)

Arguments

rsid

Vector of rsids

rsidx

Existing index

newindex

New index (Note: will delete existing file if exists)

Value

NULL, creates new index file