Sample (many) genotypes for pedigree members according to allele frequencies by allele dropping and possibly taking linkage into account by simulating recombination.

Sample (many) genotypes for pedigree members according to allele frequencies by allele dropping and possibly taking linkage into account by simulating recombination.

Usage

sample_many_pedigree_genotypes(
  pedigree,
  freqs,
  loci = names(freqs),
  unrelated_names = character(),
  linkage_map,
  number_of_replicates = 1L,
  sex_locus_name = "AMEL"
)

Arguments

pedigree

ped object

freqs

Allele frequencies (see read_allele_freqs)

loci

Character vector of locus names (defaults to names attribute of freqs)

unrelated_names

Character vector with names of any additional unrelated persons. Defaults to length zero.

linkage_map

A linkage map specifying the recombination fractions between loci. If NULL, loci are assumed to be independent.

number_of_replicates

An integer specifying the number of replicate genotype samples to generate. Defaults to 1.

sex_locus_name

Character vector, defaults to "AMEL"

See also

read_allele_freqs