| Fa {purgeR} | R Documentation |
Ancestral inbreeding coefficient
Description
Computes the ancestral inbreeding coefficient (Fa). This is the probability that an allele has been in homozygosity in at least one ancestor (Ballou 1997). A genedrop approach is included to compute unbiased estimates of Fa (Baumung et al. 2015).
Usage
Fa(ped, Fi, name_to, genedrop = 0L, seed = NULL)
Arguments
ped |
A dataframe containing the pedigree. Individual (id), maternal (dam), and paternal (sire) identities are mandatory columns. |
Fi |
Vector of inbreeding coefficient values |
name_to |
A string naming the new output column. |
genedrop |
Number of genedrop iterations to run. If set to zero (as default), Ballou's Fa is computed. |
seed |
Sets a seed for the random number generator. |
Value
The input dataframe, plus an additional column named "Fa" with individual ancestral inbreeding coefficient values.
References
Ballou JD. 1997. Ancestral inbreeding only minimally affects inbreeding depression in mammalian populations. J Hered. 88:169–178.
Baumung et al. 2015. GRAIN: A computer program to calculate ancestral and partial inbreeding coefficients using a gene dropping approach. Journal of Animal Breeding and Genetics 132: 100-108.