[R] DNA sequence Fst

[Keo Ormsby]

  Hi Blue Jay,

If your sequences are small (<10Kb) and you have a few samples (~100) 
the seqinr package from CRAN itself is a very straightforward way of 
handling DNA sequences, but if you plan to do more sophisticated things 
that can drain your RAM and processor time, I would definitely recommend 
the more versatile but complex Biostrings package from Bioconductor. 
www.bioconductor.org/packages/2.2/bioc/html/*Biostrings*.html

Happy DNARing!

Keo.



El 23/08/10 05:30 a.m., blue jay escribió:
> Hi,
>
> I want to analyse DNA sequence data (mtDNA) in R as in calculate Fst,
> Heterozygosity and such summary statistics. Package Adagenet converts the
> DNA sequence into retaining only retaining the polymorphic sites and then
> calcuates Fst.. but is there any other way to do this? I mean analyse the
> DNA sequence as it is.. and calculate the statistics?
>
>
> Thanks!
>
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>
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