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Calculate allelic retention

Source: R/calcRetention.R
calcRetention.Rd

Part of Genetic Value Analysis

Usage

calcRetention(ped, alleles)

Arguments

ped

the pedigree information in datatable format. Pedigree (req. fields: id, sire, dam, population).

It is assumed that the pedigree has no partial parentage. When the population column is missing or has no TRUE values, there are no descendants and every retention value is 0.

alleles

dataframe of containing an AlleleTable. This is a table of allele information produced by geneDrop().

Value

A named one-dimensional array with one value per founder: the proportion of the gene-drop simulations (a number from 0 to 1, not a count) in which the founder's allele is retained in the population's descendants.

References

Lacy RC. 1989. Analysis of founder representation in pedigrees: founder equivalents and founder genome equivalents. Zoo Biol 8:111-123.

See also

Other genetic value analysis: calcA(), calcFE(), calcFEFG(), calcFG(), calcFGSE(), calcGU(), calcGUSE(), calcGeneDiversity(), calcKurtosis(), calcNeSexRatio(), calcNeVariance(), calcSkewness()

Examples

library(nprcgenekeepr)
data("lacy1989Ped")
data("lacy1989PedAlleles")
ped <- lacy1989Ped
alleles <- lacy1989PedAlleles
retention <- calcRetention(ped, alleles)