HyPhy message board - Print Page

HyPhy message board
http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl HYPHY Package >> HyPhy feedback >> Question of Bayes Factor http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1307184374 Message started by Linxi on Jun 4^th, 2011 at 3:46am

Title: Question of Bayes Factor
Post by Linxi on Jun 4^th, 2011 at 3:46am

Hi Sergei,
In Hyphy,I do the REL analysis by using dNdSRateAnalysis.bf .In order to find positive selection sites,I choose the threshold for the Bayes Factor as 20.It run well and I find the positive selection sites. However I can't see the Bayes Factor of every site.How could I know the value of Bayes Factor of all site ?

Linxi

Title: Re: Question of Bayes Factor
Post by Sergei on Jun 6^th, 2011 at 8:32am

Hi Linxi,

If you use dNdSRateAnalysis.bf, select "Positive Selection" option from "Available Actions", and then "Bayes Factor" from "Detection Method". The resulting tables will report Log Bayes Factors for each site.

Sergei