Generate LD matrix objects from reference panel — generate

Creates a set of ldobj files, each corresponding to a single independent LD region from the reference panel. It also generates a map file.

generate_ldobj(
  outdir,
  bfile,
  regions,
  plink_bin = genetics.binaRies::get_plink_binary(),
  nthreads = 1
)

Arguments

outdir: Directory in which to store the ldobj files
bfile: Binary plink dataset
regions: A data frame containing the independent regions (see data(ldetect))
plink_bin: Plink executable. Default=genetics.binaRies::get_plink_binary()
nthreads: How many threads. Default=1

map file