pullMarkerGeno: Pull marker genotypes
In AlphaSimR: Breeding Program Simulations

pullMarkerGeno

R Documentation

Pull marker genotypes

Description

Retrieves genotype data for user specified loci

Usage

pullMarkerGeno(pop, markers, asRaw = FALSE, simParam = NULL)

Arguments

`pop`	an object of `RawPop-class` or `MapPop-class`
`markers`	a character vector. Indicates the names of the loci to be retrieved.
`asRaw`	return in raw (byte) format
`simParam`	an object of `SimParam`, not used if pop is `MapPop-class`

Value

Returns a matrix of genotypes.

Examples

#Create founder haplotypes
founderPop = quickHaplo(nInd=10, nChr=1, segSites=15)

#Set simulation parameters
SP = SimParam$new(founderPop)

SP$addTraitA(10)
SP$addSnpChip(5)

#Create population
pop = newPop(founderPop, simParam=SP)

#Pull genotype data for first two markers on chromosome one.
#Marker name is consistent with default naming in AlphaSimR.
pullMarkerGeno(pop, markers=c("1_1","1_2"), simParam=SP)

AlphaSimR documentation built on Nov. 2, 2023, 6:01 p.m.