[adegenet-forum] read.genepop (adegenet 2.0.0)

Jombart, Thibaut t.jombart at imperial.ac.uk
Fri Aug 21 15:38:46 CEST 2015

Hi there,

yes, this was a documented bug, fixed in the devel version. Check:

From: adegenet-forum-bounces at lists.r-forge.r-project.org [adegenet-forum-bounces at lists.r-forge.r-project.org] on behalf of Chris Hollenbeck [chollenbeck07 at tamu.edu]
Sent: 21 August 2015 14:23
To: adegenet-forum at lists.r-forge.r-project.org
Subject: [adegenet-forum] read.genepop (adegenet 2.0.0)


I've seen a similar question on another thread, but I wasn't sure if this exact issue has been addressed. It seems that the 'read.genepop' function in adegenet 2.0 no longer has the option to specify the missing data character string, with the result that missing data gets coded as an allele. Is this an intentional feature of the new package? If so, I'm not sure what is the best way to modify the genind object to change the missing data 'alleles' to NAs.

Thank you in advance for your help.

- Chris
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