selectOP {AlphaSimR} | R Documentation |
Select open pollinating plants
Description
This function models selection in an open pollinating plant population. It allows for varying the percentage of selfing. The function also provides an option for modeling selection as occuring before or after pollination.
Usage
selectOP(
pop,
nInd,
nSeeds,
probSelf = 0,
pollenControl = FALSE,
trait = 1,
use = "pheno",
selectTop = TRUE,
candidates = NULL,
simParam = NULL,
...
)
Arguments
pop |
and object of |
nInd |
the number of plants to select |
nSeeds |
number of seeds per plant |
probSelf |
percentage of seeds expected from selfing. Value ranges from 0 to 1. |
pollenControl |
are plants selected before pollination |
trait |
the trait for selection. Either a number indicating
a single trait or a function returning a vector of length nInd.
The function must work on a vector or matrix of |
use |
select on genetic values "gv", estimated breeding values "ebv", breeding values "bv", phenotypes "pheno", or randomly "rand" |
selectTop |
selects highest values if true. Selects lowest values if false. |
candidates |
an optional vector of eligible selection candidates. |
simParam |
an object of |
... |
additional arguments if using a function for trait |
Value
Returns an object of Pop-class
or MultiPop-class
Examples
#Create founder haplotypes
founderPop = quickHaplo(nInd=10, nChr=1, segSites=10)
#Set simulation parameters
SP = SimParam$new(founderPop)
SP$addTraitA(10)
SP$setVarE(h2=0.5)
#Create population
pop = newPop(founderPop, simParam=SP)
#Create new population by selecting the best 3 plant
#Assuming 50% selfing in plants and 10 seeds per plant
pop2 = selectOP(pop, nInd=3, nSeeds=10, probSelf=0.5, simParam=SP)