Detecting selection

[Joerg Schaber]

You might want to use PAML.

http://abacus.gene.ucl.ac.uk/software/paml.html


Sean.Maceachern at nre.vic.gov.au wrote:

>Hello, I have just commenced a PhD and am interested in detecting selection
>in a large subset of genes between two species. Owing to the large number
>of samples that I am analysing I need to find a program that I can automate
>through command line. To date I have not been able to find a program on
>EMBOSS that will detect ratios between synonymous and nonsynonymous
>mutations in a method analagous to GCG's Diverge. Does anyone know of a
>program on EMBOSS that will calculate these ratios or can anyone suggest a
>reliable program that would be easy to automate via command line that i can
>source from the web
>Thank you
>
>Sean MacEachern
>PhD Student
>Sean.Maceachern at nre.vic.gov.au
>
>
>  
>

-- 
----------------------------------------------------------
Jörg Schaber
Instituto Cavanilles de Biodiversidad y Biologia Evolutiva
Universidad de Valencia               Tel.: ++34 96 354 3666
A.C. 22085                            Fax.: ++34 96 354 3670
46071 Valencia, España                email : jos at uv.es