GenomeAdmixR (version 2.1.12)

iso_female_sequence: Create isofemale

Description

Creates isofemale individuals, given a population

Usage

iso_female_sequence(
  input_data = NA,
  n = 1,
  inbreeding_pop_size = 100,
  run_time = 2000,
  morgan = 1,
  recombination_rate = NA,
  num_threads = 1,
  verbose = FALSE
)

Value

A list of length n, where each entry is a fully homozygous isofemale.

Arguments

input_data

Source population from which isofemales are generated

n

Number of isofemales to be generated

inbreeding_pop_size

Population size of the population used to generate homozygous individuals

run_time

Maximum runtime used for inbreeding

morgan

Size of the chromosome in Morgan (e.g. the number of crossovers during meiosis)

recombination_rate

rate in cM / Mbp, used to map recombination to the markers. If the recombination_rate is not set, the value for Morgan is used, assuming that the markers included span an entire chromosome.

num_threads

number of threads. Default is 1. Set to -1 to use all available threads

verbose

Displays verbose output if TRUE. Default value is FALSE

Details

To create an isofemale, two individuals are randomly picked from the source population. Using these two individuals, a new population is seeded, of size inbreeding_pop_size. Then, this population is allowed to inbreed until either run_time is reached, or until all individuals are homozygous and genetically identical, whatever happens first.