Dear Steven,

There are lots of factor analysis packages in R,  but it sounds from the
below like you want something that can handle sequences too.  Have you tried
looking in Bioconductor:

http://www.bioconductor.org/

Alternately, the genetics and phylogenetics views in CRAN may have what you
want:

http://cran.r-project.org/web/views/Genetics.html

http://cran.r-project.org/web/views/Phylogenetics.html

Best,
Amy


On Tue, May 25, 2010 at 11:00 AM, <r-sig-epi-request@stat.math.ethz.ch>wrote:

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>   1. Anyone know of a good factors analysis library for R?
>      (Steven Lembark)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 24 May 2010 14:59:54 -0400
> From: Steven Lembark <lembark@wrkhors.com>
> To: r-sig-epi@stat.math.ethz.ch
> Subject: [R-sig-Epi] Anyone know of a good factors analysis library
>        for R?
> Message-ID: <20100524145954.2c105610lembark@wrkhors.com@wrkhors.com>
> Content-Type: text/plain; charset=US-ASCII
>
>
> Trying to separatey correlate the regions of HIV-1's gp120
> with neutralization data. I have comparison matrixes for
> the sequences and cross-clade neutralization data. My guess
> is that analyzing in the individual regions will give us
> better correlation with the neutralization data, but at
> this point cannot find a good package for analyzing the
> similarity matrixes.
>
> The inputs inlcude a square matrixes of comparisons between
> each clade for each region and cross-clade antibody responses.
>
> What I need is a level of correlation between the neutralization
> data and the similarity matrixes.
>
> Searching CRAN for "factors analysis", "cross clade", and
> "corretion model" in various combinations hadn't gotten me
> anything that looks relevant.
>
> Any advice would be appreciated.
>
> thanx
>
> --
> Steven Lembark                                          85-09 90th St.
> Workhorse Computing                               Woodhaven, NY, 11421
> lembark@wrkhors.com                                    +1 888 359 3508
>
>
>
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> End of R-sig-Epi Digest, Vol 41, Issue 3
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-- 
Amy Mikhail
Program Manager, ACTc Afghanistan Malaria Project
London School of Hygiene & Tropical Medicine

****** NEW HPRO OFFICE ADDRESS
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Email (Afg): amy.mikhail@googlemail.com
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