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Hello

I'm new with population genetics and I have allelic frequency data for 50 loci in 9 different populations and i need to compare the data between those populations but i don´t know any software to do that. I tried Arlequin but it only lets me input data for one locus at a time and i need all 50 loci at once.

If someone could help me with that i will be very grateful!

Arlequin can use multiple loci, as can the the amova function in the R library

`ape`

: what exactly does your data look like, and what' the problem with getting it into arlequin?I have frequency data from each allele per locus (50 biallelic loci) and i need to compare all loci at once and not locus per locus. Arlequin manual says single-locus treatment only, for allele frequency data so i have to create one project for each locus right?

Example of my data:

locus 1

Pop 1 Pop2 Pop3 Pop 4 Pop 5 Pop 6 Pop 7 Pop 8 Pop9

locus 2

And so....

You need per-indivudal genotypes to do AMOVA, as it needs to estimate within-population variance. The aggergated frequencies don't give us that.

I thought about that...

anyway thank you for you help