AlphaSimR: editGenome – R documentation

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editGenome

Edit genome

Description

Edits selected loci of selected individuals to a homozygous state for either the 1 or 0 allele. The gv slot is recalculated to reflect the any changes due to editing, but other slots remain the same.

Usage

editGenome(pop, ind, chr, segSites, allele, simParam = NULL)

Arguments

`pop`	an object of `Pop-class`
`ind`	a vector of individuals to edit
`chr`	a vector of chromosomes to edit. Length must match length of segSites.
`segSites`	a vector of segregating sites to edit. Length must match length of chr.
`allele`	either 0 or 1 for desired allele
`simParam`	an object of `SimParam`

Value

Returns an object of Pop-class

Examples

#Create founder haplotypes
founderPop = quickHaplo(nInd=2, nChr=1, segSites=10)

#Set simulation parameters
SP = SimParam$new(founderPop)
SP$addTraitA(10)

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

#Change individual 1 to homozygous for the 1 allele 
#at locus 1, chromosome 1
pop2 = editGenome(pop, ind=1, chr=1, segSites=1, 
                  allele=1, simParam=SP)

AlphaSimR

Breeding Program Simulations

v0.13.0

MIT + file LICENSE

Authors

Chris Gaynor [aut, cre] (<https://orcid.org/0000-0003-0558-6656>), Gregor Gorjanc [aut] (<https://orcid.org/0000-0001-8008-2787>), John Hickey [aut] (<https://orcid.org/0000-0001-5675-3974>), Daniel Money [ctb] (<https://orcid.org/0000-0001-5151-3648>), David Wilson [ctb]

Initial release

2020-10-20