SampleBaseHaplotype {HaploSim}

Simulate a base population haplotype

Description

Simulates a base population haplotype.

Usage

SampleBaseHaplotype(genDist,nDec,nLoc,pSnp = seq(0,1,length.out = nLoc))

Arguments

genDist

Map size of the simulated genome in Morgan.

nDec

Number of decimals until which marker positions are rounded. Partially specifies marker density on the chromosome.

nLoc

Maximal number of snp loci on genome, default is number of available positions on genome.

pSnp

Optional,if specified the snp positions. Default: uniform distribution of loci over the whole genome. Consequence will be that loci have allele frequency equal to one. If NULL, positions will be randomly sampled for each haplotype and allele frequencies will be close to 0, depending on nLoc / (genDist*10^{nDec}).

Details

Generally called by function SampleHaplotypes.

Value

An object of class haplotype.

See Also

SampleHaplotypes, SampleBaseHaplotype

Examples

hList <- sapply(1:10,function(x)SampleBaseHaplotype(genDist = 1,nDec
= 2,nLoc = 50))