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http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl Methodology Questions >> How to >> TestbranchdNdS.bf output http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1303752432 Message started by Vinny Lynch on Apr 25^th, 2011 at 10:27am

Title: TestbranchdNdS.bf output
Post by Vinny Lynch on Apr 25^th, 2011 at 10:27am

Hi All,

I'm curious if there is documentation for the output from TestbranchdNdS.bf?

It is clear what "sharedNS" is and what the alternative NS is, but what are the parameters named with "Q" and "P". Since these are appended to beta and alpha, I assume they are related to the nonsyn and syn rates somehow.

Thanks
Vinny

Title: Re: TestbranchdNdS.bf output
Post by Sergei on Apr 25^th, 2011 at 10:33am

Hi Vinny,

Those are the two parameters of the beta distribution which is a part of how alpha and beta rates are modeled. For a better explanation take a look at Multimedia File Viewing and Clickable Links are available for Registered Members only!! You need to