[adegenet-forum] detecting outliers - loci under selection

[Valeria Montano]

Dear Mayte,

I am not sure there are many many things you can do with your many many
loci. I guess you want to do a locus by locus fst and select the outliers
as candidate for selective processes. I could suggest you to read this
paper<http://onlinelibrary.wiley.com/doi/10.1111/j.1755-0998.2011.02987.x/pdf>
to
draw on from.

Ciao

Valeria

On 27 November 2012 16:48, Jombart, Thibaut <t.jombart at imperial.ac.uk>wrote:

> Hi there,
>
> adegenet can be used to do a few things, R can do pretty much everything,
> but first we need to know what you mean by outlying loci. Do you have any
> trait information to relate alleles to? In any case, there will be multiple
> testing issue as this is possibly the worst setting for GWAS-type of
> analysis.
>
> 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 Mayte
> Ruiz [mayaruizz at gmail.com]
> Sent: 27 November 2012 13:58
> To: adegenet-forum at lists.r-forge.r-project.org
> Subject: [adegenet-forum] detecting outliers - loci under selection
>
> Dear Thibaut Jombart and adegenet users,
>
> I am working with RAD sequenced data of 2 populations with only 10
> individuals each but with many many loci.  I have been searching for a
> program which detects outliers (loci under selection) from my data.  A
> colleague has suggested adegenet as a possibility.  Can adegenet be used
> for this?  I have searched the manual but do not yet find anything
> explicitly on detecting outlier loci.
>
> Many thanks,
> Mayte
>
> --
> Mayte Ruiz, Ph.D
> Post-doctoral Fellow
> University of Puerto Rico Rio Piedras
> mayaruizz at gmail.com<mailto:mayaruizz at gmail.com>
>
>
> _______________________________________________
> adegenet-forum mailing list
> adegenet-forum at lists.r-forge.r-project.org
> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/adegenet-forum
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.r-forge.r-project.org/pipermail/adegenet-forum/attachments/20121127/6cb53604/attachment.html>