Hello,
I am investigating several genes using the Branch-site REL program on datamonkey. If my gene is, e.g., BRCA1, should I construct a phylogeny based on BRCA1 or should I use a true phylogeny (i.e., one which accurately reflects the relatedness of the species)?
Thanks.
NB. I have posted this question on the datamonkey message board, but no response has been forthcoming.
Thank you. That's all very helpful.