makemakePedigreeFactor {pedtricks} | R Documentation |
Deprecated functions from package pedantics.
Description
The functions listed below are deprecated and are available for backward compatibility only. They might be defunct in a future version When possible, alternative functions with similar functionality are also mentioned.
Usage
makemakePedigreeFactor(id, sire, dam, key = NULL)
makePedigreeNumeric(id, sire, dam, missingVal = NA)
drawPedigree(
Ped,
cohorts = NULL,
sex = NULL,
dat = NULL,
dots = "n",
plotfull = "y",
writeCohortLabels = "n",
links = "all",
sexInd = c(0, 1),
dotSize = 0.001,
dataDots = "n",
dataDots.cex = 2,
cohortLabs.cex = 1,
retain = "informative",
focal = NULL,
sexColours = c("red", "blue"),
...
)
fixPedigree(ped, dat = NULL)
genomesim(
pedigree,
founders = NULL,
positions = NULL,
initHe = NULL,
mutationType = NULL,
mutationRate = NULL,
phenotyped = NULL,
founderHaplotypes = NULL,
genotyped = NULL,
returnG = "n",
initFreqs = NULL
)
microsim(
pedigree,
genFreqs = NULL,
genotypesSample = NULL,
knownGenotypes = NULL,
records = NULL,
eRate1 = 0,
eRate2 = 0,
eRate3 = 0
)
pedigreeStat()
pedStatSummary()
phensim(
pedigree,
traits = 1,
randomA = NULL,
randomE = NULL,
parentalA = NULL,
parentalE = NULL,
sampled = NULL,
records = NULL,
returnAllEffects = FALSE
)
Value
dependant on the deprecated function see pedantics help for details
makePedigreeFactor
the function is now a special case of the convert_ped
function when type is factor
makePedigreeNumeric
the function is now a special case of the convert_ped
function when type is numeric
drawPedigree
the function has just been renamed with no other changes for the moment, but will soon be replace by "ggpedigree" function
fixPedigree
the function has just been renamed with no other changes for the moment
genomesim
the function has just been renamed with no other changes for the moment
microsim
the function has just been renamed with no other changes for the moment
pedigreeStats
the function has been simplified but only the functionality are still available via ped_stats
and its summary and plot methods
pedStatSummary
the function has been simplified but only the functionality are still available via ped_stats
and its summary and plot methods
phensim
the function has just been renamed with no other changes for the moment