pop_Ne {purgeR} | R Documentation |
Effective population size
Description
Estimate the effective population size (Ne). This is computed from the increase in individual inbreeding, following the method described by Gutiérrez et al (2008, 2009).
Usage
pop_Ne(ped, Fcol, tcol)
Arguments
ped |
A dataframe containing the pedigree. Individual (id), maternal (dam), and paternal (sire) identities are mandatory columns. |
Fcol |
Name of column with inbreeding coefficient values. |
tcol |
Name of column with generation numbers. |
Value
A list with the effective population size (Ne) and its standard error (se_Ne).
References
Gutiérrez JP, Cervantes I, Molina A, Valera M, Goyache F. 2008. Individual increase in inbreeding allows estimating effective sizes from pedigrees. Genet. Sel. Evol. 40: 359-378.
Gutiérrez JP, Cervantes I, Goyache F. 2009. Improving the estimation of realized effective population sizes in farm animals. J. Anim. Breed. Genet. 126: 327-332.
See Also
Examples
data(atlas)
atlas <- ip_F(atlas) # compute inbreeding, appending column "F"
atlas <- pop_t(atlas) # compute generations, appending column "t"
pop_Ne(atlas, Fcol = "Fi", tcol = "t")