[adegenet-forum] How to get observed heterozygosity per population

[Jombart, Thibaut]

Hello,

have you tried 'summary'? Note, the current devel version is better (previous summary was returning invisibly a list).

Cheers
Thibaut


________________________________
From: adegenet-forum-bounces at lists.r-forge.r-project.org [adegenet-forum-bounces at lists.r-forge.r-project.org] on behalf of Simon Nadeau [simon.nadeau.ubc at gmail.com]
Sent: 19 November 2015 23:00
To: adegenet-forum at lists.r-forge.r-project.org
Subject: [adegenet-forum] How to get observed heterozygosity per population

Hi,

      I have recently been using the various features of adegenet unsing genind objects and I works great so far. However, I can't seem to be able to find easy summary stats:

Observed heterozygosity per population: this would be very handy but I only found the function Hs (expected heterozygosity).

Global allele frequencies per loci: there is a nice histogram of minor allele frequencies on page 30 of the adegenet genomic tutorial, but I can't find how to generate the same plot using genind objects.

Thank you very much for your help,

Simon

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Simon Nadeau, M. Sc.
Biologiste / Biologist

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