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http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl Methodology Questions >> How to >> batch file for REL of Datamonkey http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1237454709 Message started by Miguel on Mar 19^th, 2009 at 2:25am

Title: batch file for REL of Datamonkey
Post by Miguel on Mar 19^th, 2009 at 2:25am

Dear Sergei,

I am looking for the batch file of REL that works in datamokey:
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The idea is to estimate the Mean dN-dS with Std.Dev and if any site is positive or negative selected. I would like to have a batch file because we have many alignments for studying.
I was looking for this analysis of datamonkey in several batch files but I did find it.

Thanks a lot! :)
Miguel

Title: Re: batch file for REL of Datamonkey
Post by Sergei on Mar 19^th, 2009 at 6:18pm

Hi Miguel,

The standalone distribution of HyPhy implements REL with dNdSRateAnalysis.bf and result processing with dNdSResultProcessor.bf (both located inside TemplateBatchFiles). The options for using the analysis are explained in section 2.6.5. of Multimedia File Viewing and Clickable Links are available for Registered Members only!! You need to

Title: Re: batch file for REL of Datamonkey
Post by Miguel on Mar 20^th, 2009 at 2:24am

Ok, thanks a lot!

Best,
Miguel