getGv {SIMplyBee} | R Documentation |
Access genetic values of individuals in a caste
Description
Level 0 function that returns genetic values of individuals in a caste.
Usage
getGv(x, caste = NULL, nInd = NULL, collapse = FALSE)
getQueenGv(x, collapse = FALSE)
getFathersGv(x, nInd = NULL, collapse = FALSE)
getVirginQueensGv(x, nInd = NULL, collapse = FALSE)
getWorkersGv(x, nInd = NULL, collapse = FALSE)
getDronesGv(x, nInd = NULL, collapse = FALSE)
Arguments
x |
|
caste |
NULL or character, NULL when |
nInd |
numeric, number of individuals to access, if |
collapse |
logical, if the return value should be a single matrix with genetic values of all the individuals |
Value
vector of phenotype values when x
is Colony-class
and list of vectors of genetic values when x
is
MultiColony-class
, named by colony id when x
is
MultiColony-class
Functions
-
getQueenGv()
: Access genetic value of the queen -
getFathersGv()
: Access genetic values of fathers -
getVirginQueensGv()
: Access genetic values of virgin queens -
getWorkersGv()
: Access genetic values of workers -
getDronesGv()
: Access genetic values of drones
See Also
gv
and
vignette(topic = "QuantitativeGenetics", package = "SIMplyBee")
Examples
founderGenomes <- quickHaplo(nInd = 4, nChr = 1, segSites = 50)
SP <- SimParamBee$new(founderGenomes)
SP$addTraitA(nQtlPerChr = 10, var = 1)
SP$addSnpChip(5)
basePop <- createVirginQueens(founderGenomes)
drones <- createDrones(x = basePop[1], nInd = 1000)
droneGroups <- pullDroneGroupsFromDCA(drones, n = 10, nDrones = nFathersPoisson)
# Create a Colony and a MultiColony class
colony <- createColony(x = basePop[2])
colony <- cross(colony, drones = droneGroups[[1]])
colony <- buildUp(x = colony, nWorkers = 6, nDrones = 3)
colony <- addVirginQueens(x = colony, nInd = 5)
apiary <- createMultiColony(basePop[3:4], n = 2)
apiary <- cross(apiary, drones = droneGroups[c(2, 3)])
apiary <- buildUp(x = apiary, nWorkers = 6, nDrones = 3)
apiary <- addVirginQueens(x = apiary, nInd = 5)
# Input is a population
getGv(x = getQueen(colony))
queens <- getQueen(apiary, collapse = TRUE)
getGv(queens)
# Input is a colony
getGv(colony, caste = "queen")
getQueenGv(colony)
getGv(colony, caste = "workers")
getWorkersGv(colony)
# Same aliases exist for all the castes!
# Get genetic values for all individuals
getGv(colony, caste = "all")
# Get all genetic values in a single matrix
getGv(colony, caste = "all", collapse = TRUE)
# Input is a MultiColony - same behaviour as for the Colony!
getGv(apiary, caste = "queen")
getQueenGv(apiary)
# Get the genetic values of all individuals either by colony or in a single matrix
getGv(apiary, caste = "all")
getGv(apiary, caste = "all", collapse = TRUE)