generate_ldobj: Generate LD matrix objects from reference panel

In explodecomputer/simulateGP: Functions for Simulating Genotype-Phenotype Relationships

Generate LD matrix objects from reference panel

Description

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

Usage

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

Value

map file

explodecomputer/simulateGP documentation built on April 3, 2024, 2:38 a.m.