gen.dist calculates the Jost's D between all possible population pairs
using the R package
This function takes the output from the function
multi.clean.genepop) as input and uses the R package
to convert the input in a genind object.
A text file with extension .pairD that contains a pairwise distance matrix is saved to disk.
mean.type can be set to either "arithmetic" or "harmonic" (default),
which is used to calculate the global estimates of Hs and Ht (see
mmod's manual for details).
gen.dist(fname, mean.type = "harmonic")
A character vector with the name of the input file including the path
The type of mean to be calculated over multiple loci
Save to disk a file with same root of the input file with extension .pairD
Jost, L.O.U., 2008. GST and its relatives do not measure differentiation. Molecular Ecology 17, 4015-4026.
Winter, D.J., 2012. mmod: an R library for the calculation of population differentiation statistics. Molecular Ecology Resources 12, 1158-1160.
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