sim_ail_pedigree: Simulate AIL pedigree

In kbroman/simcross: Simulate Experimental Crosses

Simulate AIL pedigree

Description

Simulate a pedigree for advanced intercross lines (a table of individual, mom, dad, sex)

Usage

sim_ail_pedigree(
  ngen = 12,
  npairs = 30,
  nkids_per = 5,
  design = c("nosib", "random")
)

Arguments

ngen	Number of generations of outbreeding
npairs	Number of breeding pairs at each generation
nkids_per	Number of offspring per pair for the last generation
design	How to choose crosses: either random but avoiding siblings, or completely at random

Details

Advanced intercross lines (AIL) are generated from a pair of inbred lines. We cross them and then cross the F1 to generate npair breeding pairs. The subsequent ngen outbreeding generations then proceed by crossing a male and female from the preceding generation (mated completely at random, with design="random", or avoiding siblings, with design="nosib"). Each breeding pair gives a single female and a single male to the next generation, except at the last generation nkids_per offspring are mated, in equal numbers male and female. (If nkids_per is an odd number, the number of males and females in each sibship will differ by one, alternating between sibships, with one additional female and then one additional male.

Value

A data frame with five columns: individual ID, mother ID, father ID, sex, and generation. Founders have 0 for mother and father ID. Sex is coded 0 for female and 1 for male.

See Also

sim_from_pedigree(), sim_ril_pedigree(), sim_do_pedigree(), sim_4way_pedigree()

Examples

tab <- sim_ail_pedigree(12, 30)

kbroman/simcross documentation built on Jan. 13, 2024, 10:31 p.m.