detect_gt — detect_gt • genometranslator

Detect the genotype format used in the data set.

Usage

detect_gt(
  x,
  gt.format = c("GT", "ALT_DOSAGE", "GT_VCF", "GT_VCF_NUC"),
  keep.one = TRUE,
  favorite = "ALT_DOSAGE"
)

Arguments

x: The data
gt.format: (character) Default: gt.format = c("GT", "ALT_DOSAGE", "GT_VCF", "GT_VCF_NUC").
keep.one: (logical) Will return only one format if keep.one = TRUE. Default: keep.one = TRUE.
favorite: If more than one format is present and keep.one = TRUE, the favorite will be returned, if present. Otherwise, the first format in gt.format is returned. Default: favorite = "ALT_DOSAGE".