Part of Genetic Value Analysis
Usage
alleleFreq(alleles, ids = NULL)
Arguments
- alleles
a numeric vector of alleles (integer codes) in the population
- ids
character vector of IDs indicating to which animal each allele
in alleles belongs. It must be the same length as alleles.
Value
A data.frame with columns allele (a factor) 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
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
