Hi,

I am working with several sequences at this moment. 
I would like to do an analysis about estimating dN/dS (or dN-dS, dN, dS) by branches, like GABranch in Datamonkey. However, I have more than 25 sequences so I am thinking that I have to use Hyphy for that.
So, I am goingo to "Standard Analysis" -> "Compartmentalization" -> "BranchClassDNDS".
First question: Is this analysis similar to the GABranch of Datamonkey?, or, Where is it (GABranch of Datamonkey) in Hyphy?, because, is there this analysis (GABranch of Datamonkey) in Hyphy? 

Then, I am following with this analysis ("Standard Analysis" -> "Compartmentalization" -> "BranchClassDNDS") and when I am introducing a sequences file for second time (any sequence file, "p51.nex" Hyphy example include), the software writes this:
- Macintosh HD:Applications:HYPHY:data:p51.nex does not appear to contain a valid branch partition information -
and stops  . I do not know why.   

So, what can I do to analyze my sequences?
Thank you very much!

Cheers
Miguel

Dear Sergei,

Thank you for that. However, at this time our station cannot run MPI applications for a problem in the LAM distribution.
So, Do you have a version for a computer with only one processor? like a single Mac X. I know that this option takes a lot of more execution time.


Cheers,
Miguel