: Fri, 15 Mar 2013 14:23:20
To: Alejandro Gonzalezalejandro.gonza...@ebd.csic.es
Cc: R-phylo Mailing-listr-sig-phylo@r-project.org
Subject: Re: [R-sig-phylo] Ancestral state estimates of continuous traits
Hi Alejandro.
That must be a bug in ace(...,method=GLS).
I would also suggest you check out
Cc: R-phylo Mailing-list
Subject: Re: [R-sig-phylo] Ancestral state estimates of continuous traits
Alejandro and Liam,
You can also try method=REML which gives much better estimates of sigma^2
than ML. I think I'll make it the default for continuous characters.
Best,
Emmanuel
-Original
Hello,
I am using ape to obtain ancestral state estimates for continuous traits. Two
options are available, either maximum likelihood or a GLS method. I am
comparing the results of both methods and one difference between the two
puzzles me, I hope someone can enlighten me. Under GLS the
