Get identity by state (IBS) distance

Get identity by state (IBS) distance, computed as the proportion of sites that are identical between samples. If ignore_het = TRUE then heterozygous sites are ignored, otherwise the major strain is called at every locus.

get_IBS_distance(x, ignore_het = TRUE, diagonal = NULL, report_progress = TRUE)

Arguments

x

object of class mipanalyzer_biallelic.

ignore_het

whether to ignore heterozygous comparisons, or alternatively call the major allele at every locus (see details).

diagonal

Should the diagonal of the distance matrix be changed to a given value. Default = NULL, which cause no changes.

report_progress

if TRUE then a progress bar is printed to the console.