Configure sex chromosome mapping — set_sex_chr

By default, ggwas uses human chromosome conventions where chromosome 23 is labeled "X", 24 is "Y", etc. For non-human organisms or when chromosomes should be displayed as plain numbers, this mapping can be customized or disabled.

Usage

set_sex_chr_map(map = .default_sex_chr_map)

Arguments

map: A named integer vector mapping labels to integers, e.g. c(X = 23L, Y = 24L). Pass NULL to disable all sex chromosome mapping (chromosomes displayed as plain numbers).

Value

The previous mapping (invisibly).

Examples

# Default: human (23 -> X, 24 -> Y, 25 -> XY, 26 -> MT)
set_sex_chr_map()

# Disable: all chromosomes shown as numbers
set_sex_chr_map(NULL)

# Mouse: 20 -> X, 21 -> Y
set_sex_chr_map(c(X = 20L, Y = 21L))

# Restore default
set_sex_chr_map()