AlphaSimR: reduceGenome – R documentation

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reduceGenome

Create individuals with reduced ploidy

Description

Creates new individuals from gametes. This function was created to model the creation of diploid potatoes from tetraploid potatoes. It can be used on any population with an even ploidy level. The newly created individuals will have half the ploidy level of the originals. The reduction can occur with or without genetic recombination.

Usage

reduceGenome(
  pop,
  nProgeny = 1,
  useFemale = TRUE,
  keepParents = TRUE,
  simRecomb = TRUE,
  simParam = NULL
)

Arguments

`pop`	an object of 'Pop' superclass
`nProgeny`	total number of progeny per individual
`useFemale`	should female recombination rates be used.
`keepParents`	should previous parents be used for mother and father.
`simRecomb`	should genetic recombination be modeled.
`simParam`	an object of 'SimParam' class

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)

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

#Create individuals with reduced ploidy
pop2 = reduceGenome(pop, 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