genome-class: Create a genome

In frederic-michaud/hapex: FRequency Evolution Simulator of Sex-linked Alleles

Description

A genome is a S4 class which define all the properties of a genome, it is basically a list of locus

Arguments

locus	A list of locus
male.recombination	Optional: A vector containing the recombination rate between the different locus. It should be of length n-1 where n is the number of locus.
female.recombination	Optional: A vector containing the recombination rate between the different locus. It should be of length n-1 where n is the number of locus.
position.modifier	Optional: indicate a list of link on which the modifier act. If empty (as in default), modifier act on all links.

Examples

locus1 = create.locus(allele1=c(1,1),allele2 = c(1,2),sd = c(0,1),fitness.male=c(1,1),fitness.female=c(1,1))
locus2 = create.locus(allele1=  c(1,1,2),allele2 = c(1,2,2),fitness.female = c(1,0.9,0.8),fitness.male = c(0.6,0.8,1))
genome = create.genome(locus=list(locus1,locus2))

frederic-michaud/hapex documentation built on May 15, 2019, 3:29 p.m.