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Best method to study positive selection. (Read 2382 times)
Kim
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Best method to study positive selection.
Nov 26th, 2013 at 12:56am  
Hi!

The Datamonkey website recommends MEME for the detection of positive selection. However, I have now heard several times that FUBAR is 'the best' method to detect positive selection at the moment. I know that these methods are not exactly the same, but which one would you recommend to study positive selection?

Thanks!
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Sergei
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Re: Best method to study positive selection.
Reply #1 - Nov 26th, 2013 at 1:10pm  
Hi Kim,

FUBAR can handle much larger datasets, but it only looks for pervasive diversifying selection; MEME can also detect episodic selection (i.e. only a subset of branches) -- hence the methods answer different questions. It doesn't hurt to run both.

Sergei
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