landscape.new.locus: Add a locus

In stranda/kernelPop2: Spatially explicit population genetic simulations

Description

Add a locus to a Rmetasim landscape object

Usage

  ## must be called AFTER integer, switch, and float params have been created
  rland <- landscape.new.locus(rland,type=0,ploidy=1,mutationrate=0,transmission=1,numalleles=2,allelesize=50,frequencies=0)

Arguments

rland	partially created landscape object, required
type	(default=0) type of locus, 0=Infinite Allele mutation model (Integer), 1=Stepwise mutation model (Integer) state, 2=DNA base (variable length string state)
ploidy	(default=1) locus ploidy, 1 or 2
mutationrate	(default=0) probability of mutation per generation, less than or equal to 1
transmission	(default=1) 1=uniparental inheritance, 0=biparental inheritance
numalleles	(default=2) number of different alleles at the time of creation
allelesize	(default=50) length of DNA strings if type=2
frequencies	(default=NULL) vector of frequencies for each allele, must be numalleles long and add up to 1, if NULL frequencies are equally distributed

Examples

  exampleland <- landscape.new.empty()
  exampleland <- landscape.new.intparam(exampleland, s=2, h=2)
  exampleland <- landscape.new.floatparam(exampleland)
  exampleland <- landscape.new.switchparam(exampleland)

  exampleland <- landscape.new.locus(exampleland,type=2,ploidy=2,mutationrate=.001,numalleles=5,allelesize=100)

  exampleland$loci

  rm(exampleland)

stranda/kernelPop2 documentation built on March 30, 2020, 5:37 a.m.