Welcome, Guest. Please Login
YaBB - Yet another Bulletin Board
 
  HomeHelpSearchLogin  
 
Best method to study positive selection. (Read 1056 times)
Kim
YaBB Newbies
*
Offline


Curious HyPhy user

Posts: 1
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!
Back to top
 
 
IP Logged
 
Sergei
YaBB Administrator
*****
Offline


Datamonkeys are forever...

Posts: 1658
UCSD
Gender: male
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
Back to top
 

Associate Professor
Division of Infectious Diseases
Division of Biomedical Informatics
School of Medicine
University of California San Diego
WWW WWW  
IP Logged