Convert EIGENSTRAT or PACKEDANCESTRYMAP to PLINK — packedancestrymap_to

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.

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