Hi, I am a new user of the Datamonkey server. For my analysis I want to determine whether purifying selection is affecting mtDNA in genus of reef fish. From what I've read, it seems that the best approach is to try do determine whether purifying selection is affecting certain branches of a tree, which could be done using DEPS.

I cannot manage to find the DEPS option in the pop-up "Method " menu. Should I be doing this analysis with the aligned mtDNA or translated aminoacid sequence?  Is this option only available in the HYPHY gui?  :-/

thanks, any information helps

Hi there,

DEPS (and a newer/faster version called FADE) is available for PROTEIN alignments on Multimedia File Viewing and Clickable Links are available for Registered Members only!!  You need to Login.
You should upload your translated alignment and the option will be visible.

Sergei