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HYPHY Package >> HyPhy feedback >> Switching from PAML http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1180492693 Message started by Andrew_Roth on May 29th, 2007 at 7:38pm |
Title: Switching from PAML Post by Andrew_Roth on May 29th, 2007 at 7:38pm
I've been doing some positive selection analysis with PAML and I am finding it is not scaling well as I add more species. I have been using the branch models in PAML but it seems to slow down to a crawl with larger data sets (50+ species, 600+ codons).
I am wondering how well HYPHY does with larger data sets, I am using a Intel core duo which PAML can't really take full advantage of. Are there any articles comparing the two programs running similar models? I am curious to find out if HYPHY and PAML return the same results when running the same models. I would also like to know how well HYPHY does when using computers with more cores and when using clusters. Thanks in advance. |
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