Re: [R-sig-phylo] Microsatellites

2012-11-07 Thread Vojtěch Zeisek 
Dne St 7. listopadu 2012 16:38:03 jste napsal(a):
> ps: I forgot to mention documentation; for adegenet, see the adegenet
> website: http://adegenet.r-forge.r-project.org/

Thank You very much!
All the best!
Vojtěch

> 
> From: r-sig-phylo-boun...@r-project.org [r-sig-phylo-boun...@r-project.org]
> on behalf of Vojtěch Zeisek [vojtech.zei...@opensuse.org] Sent: 07 November
> 2012 15:37
> To: mailinglist R
> Subject: [R-sig-phylo] Microsatellites
>
> Hello,
> could someone, please, point me to some manual, where I can learn how to
> work with microsatellite data in R. I have big matrix of individuals and
> lengths of respective alleles and I'd like to count genetic distances among
> individuals, AMOVA, visualize data using PCoA, perform Bayesian clustering,
> count correlation of genetic and geographical distance and so on.
> Thank You in advance!
> All the best,
> Vojtěch
--
Vojtěch Zeisek

Komunita openSUSE GNU/Linuxu
Community of the openSUSE GNU/Linux

http://www.opensuse.org/
http://trapa.cz/


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Re: [R-sig-phylo] Microsatellites

2012-11-07 Thread Jombart, Thibaut 
Dear Vojtěch, 

You may have a look at the following packages:
- handling microsat data / distance related things / clustering: adegenet
- amova: pegas
- Bayesian clustering: Geneland (spatial clustering)

Cheers
Thibaut

From: r-sig-phylo-boun...@r-project.org [r-sig-phylo-boun...@r-project.org] on 
behalf of Vojtěch Zeisek [vojtech.zei...@opensuse.org]
Sent: 07 November 2012 15:37
To: mailinglist R
Subject: [R-sig-phylo] Microsatellites

Hello,
could someone, please, point me to some manual, where I can learn how to work
with microsatellite data in R. I have big matrix of individuals and lengths of
respective alleles and I'd like to count genetic distances among individuals,
AMOVA, visualize data using PCoA, perform Bayesian clustering, count
correlation of genetic and geographical distance and so on.
Thank You in advance!
All the best,
Vojtěch

--
Vojtěch Zeisek

Komunita openSUSE GNU/Linuxu
Community of the openSUSE GNU/Linux

http://www.opensuse.org/
http://trapa.cz/
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