simu.write.ancstrl: Simulation tools

In keurcien/simulate: Introgression simulations

Description

simu.write.ancstrl creates haplotype matrices and genotype matrices from Beagle outputs.

Usage

simu.write.ancstrl(obj.vcfR, pop, ancestral.1, ancestral.2, recombinationRate,
  keep, output.name = "output")

Arguments

obj.vcfR	an object of class vcfR obtained with a Beagle output.
pop	a string vector specifying the population labels for each individual present in the VCF file.
ancestral.1	a character string or an integer specifying the first ancestral population.
ancestral.2	a character string or an integer specifying the second ancestral population.
recombinationRate	a numerical value expressed in centiMorgans per Megabase specifying the mean recombination rate of the species.
keep	a list specifying the markers to keep. If missing, all markers will be kept.
output.name	a character string specifying the name of the output map file.

keurcien/simulate documentation built on May 20, 2019, 3:32 p.m.