mate.userped: User-specified pedigree mating

In simer: Data Simulation for Life Science and Breeding

User-specified pedigree mating

Description

Produce individuals by user-specified pedigree mating.

Usage

mate.userped(SP, ncpus = 0, verbose = TRUE)

Arguments

SP	a list of all simulation parameters.
ncpus	the number of threads used, if NULL, (logical core number - 1) is automatically used.
verbose	whether to print detail.

Details

Build date: Apr 12, 2022 Last update: Feb 18, 2025

Value

the function returns a list containing

$reprod$pop.sel

the generations of simulated population.

$reprod$reprod.way

reproduction method, it consists of 'clone', 'dh', 'selfpol', 'randmate', 'randexself', 'assort', 'disassort', '2waycro', '3waycro', '4waycro', 'backcro', and 'userped'.

$reprod$sex.rate

the sex ratio of simulated population.

$reprod$prog

the progeny number of an individual.

$reprod$userped

the pedigree designed by user.

$geno

a list of genotype simulation parameters.

$pheno

a list of phenotype simulation parameters.

Author(s)

Dong Yin

Examples

# Generate annotation simulation parameters
SP <- param.annot(qtn.num = list(tr1 = 10))
# Generate genotype simulation parameters
SP <- param.geno(SP = SP, pop.marker = 1e4, pop.ind = 1e2)
# Generate phenotype simulation parameters
SP <- param.pheno(SP = SP, pop.ind = 100)
# Generate reproduction parameters
SP <- param.reprod(SP = SP, reprod.way = "userped")

# Run annotation simulation
SP <- annotation(SP)
# Run genotype simulation
SP <- genotype(SP)
# Run phenotype simulation
SP <- phenotype(SP)
# Run user-specified pedigree mating
SP <- mate.userped(SP)

simer documentation built on April 3, 2025, 9:24 p.m.