Calculates the count of each allele in the provided vector.

Part of Genetic Value Analysis

alleleFreq(alleles, ids = NULL)

Arguments

alleles	an integer vector of alleles in the population
ids	character vector of IDs indicating to which animal each allele in alleles belongs.

Value

A data.frame with columns allele and freq. This is a table of allele counts within the population.

Details

If ids are provided, the function will only count the unique alleles for an individual (homozygous alleles will be counted as 1).

Examples

# \donttest{
library(nprcgenekeepr)
data("ped1Alleles")
ids <- ped1Alleles$id
alleles <- ped1Alleles[, !(names(ped1Alleles) %in% c("id", "parent"))]
aF <- alleleFreq(alleles[[1]], ids = NULL)
aF[aF$freq >= 10, ]
#>     allele freq
#> 230  20004   10
#> 238  20012   11
# }