Export a gen_tibble object to PLINK bed format — gt_as

This function exports all the information of a gen_tibble object into a PLINK bed, ped or raw file (and associated files, i.e. .bim and .fam for .bed; .fam for .ped).

Usage

gt_as_plink(
  x,
  file = NULL,
  type = c("bed", "ped", "raw"),
  overwrite = TRUE,
  chromosomes_as_int = FALSE
)

Arguments

x: a gen_tibble object
file: a character string giving the path to output file. If left to NULL, the output file will have the same path and prefix of the backingfile.
type: one of "bed", "ped" or "raw"
overwrite: boolean whether to overwrite the file.
chromosomes_as_int: boolean whether to use the integer representation of the chromosomes

Value

the path of the saved file

Details

If the gen_tibble has been read in from vcf format, family.ID in the resulting plink files will be the same as sample.ID.