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FUBAR on Datamonkey (Read 5863 times)
ursulla82
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FUBAR on Datamonkey
Oct 9th, 2013 at 3:52pm
 
Dear Sergei,

I am using FUBAR through the Datamonkey website and I wonder what the omega in the result page refers to. Is it the beta/alpha ratio? It is greater than one but my genes are globally under negative selection with not a single site under positive selection.

Also, is it possible to get the global dN/dS using FUBAR?

Many thanks,
Ursulla
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Sergei
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Re: FUBAR on Datamonkey
Reply #1 - Oct 9th, 2013 at 4:05pm
 
Hi Ursulla,

Because we allow dS and dN to vary in FUBAR (and dS can become very small), the omega ratio will generally be quite unstable. It is better to look at the beta-alpha (which is like dN-dS) and compare it to 0.

Sergei
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