[R-sig-genetics] R-sig-genetics Digest, Vol 7, Issue 1

[Ross]

No, but I have a tool in Galaxy based on Abecasis' GRR - his software
still available but only as 32bit windows app so very limited in terms
of sample and genotype sizes.
My app reimplements his algorithm - It estimates mean/sd allele
sharing for all pairs, then normalizes those for each pedigree
relationship group (parent-child/sibs/unrelated/etc..) and does a nice
interactive plot.
You'll need at least 5k or 10k ld independent SNPs for reasonable results.
It's in the rgenetics tools at http://usegalaxy.org - happy to help if
you have any questions on using it.

On Mon, Jun 28, 2010 at 8:00 PM,  <r-sig-genetics-request at r-project.org> wrote:
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>   1. Calcualtion of pairwise relatedness in R: package?
>      (Nevil Amos (Sci))
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> ----------------------------------------------------------------------
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> Message: 1
> Date: Mon, 28 Jun 2010 03:50:06 +1000
> From: "Nevil Amos (Sci)" <nevil.amos at monash.edu>
> To: R-sig-genetics at r-project.org
> Subject: [R-sig-genetics] Calcualtion of pairwise relatedness in R:
>        package?
> Message-ID:
>        <AANLkTilSVYW5HM9WhqFVOe3s41uHNdd1dijT6lWafLF7 at mail.gmail.com>
> Content-Type: text/plain
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> Is the calculation of pairwise relateness
> eg. Queller and Goodnight 1989 avaiable in any R: package?
>
> cheers
>
>
>
> --
> Nevil Amos
> Molecular Ecology Research Group
> Australian Centre for Biodiversity
> Monash University
> CLAYTON VIC 3800
> Australia
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-- 
Ross Lazarus MBBS MPH
Associate Professor, Harvard Medical School
Director of Bioinformatics, Channing Laboratory
181 Longwood Ave., Boston MA 02115, USA.
Tel: +1 617 505 4850