packedancestrymap_to_plink: Convert _EIGENSTRAT_ or _PACKEDANCESTRYMAP_ to _PLINK_

In uqrmaie1/admixtools: Inferring demographic history from genetic data

Convert EIGENSTRAT or PACKEDANCESTRYMAP to PLINK

Description

This function converts EIGENSTRAT/PACKEDANCESTRYMAP format files to PLINK files, using write_plink. When inds or pops is provided, only a subset of samples will be extracted. This function can have a high memory footprint, because data for all SNPs will be read before writing the PLINK files.

Usage

packedancestrymap_to_plink(
  inpref,
  outpref,
  inds = NULL,
  pops = NULL,
  verbose = TRUE
)

Arguments

inpref	Prefix of the input files
outpref	Prefix of the PLINK output files
inds	Individuals which should be extracted
pops	Populations which should be extracted. Can not be provided together with inds
verbose	Print progress updates

Alias

eigenstrat_to_plink

uqrmaie1/admixtools documentation built on Nov. 3, 2024, 12:56 a.m.