Fstat {Geneland}R Documentation

Computes F statistics on a population genetics dataset given as R object

Description

Computes F statistics according to Weir and Cockerham's estimators. Missing values are allowed and accounting for in the computation of Fst. The presence of missing values involves a downward bias in the computation of Fis. This function should not be used on haploid data.

Usage

Fstat(genotypes,npop,pop.mbrship,ploidy)

Arguments

genotypes Genotypes of individuals. A matrix with one line per individual and 2 columns per locus
npop total number of popluation present in the dataset
pop.mbrship Vector of integers giving the population membership for each individual
ploidy Integer: 1 or 2 (default is 2) under development. Do not use for haploid data.

Value

A list with components

Fis A vector of estimations of within-population Fis
Fst A matrix of estimations the pairwise population Fst. (Only the upper triangular part is returned).

Author(s)

Arnaud Estoup for original code in Turbo Pascal.

Translation in Fortran and interface with R by Gilles Guillot

References

Weir, B.S. and C.C. Cockerham, Estimating F-statistics for the analysis of population structure, Evolution, 1984, vol. 38, 1358-1370.


[Package Geneland version 3.1.4 Index]