Hi,
For multiple co-evolving traits you can also look at the mvSLOUCH package,
http://www.math.chalmers.se/~krzbar/mvSLOUCH/mvSLOUCH.html
Bartoszek et. al., A phylogenetic comparative method for studying multivariate
adaptation, Journal of Theoretical Biology, 314:204-215, 2012.
However you can a
Thanks Marguerite for your reply!
To answer your questions, as for where I heard about trait variance
approaching sigma2/(2*alpha), I had posted to r-sig-phylo about similar
problems a little over a year ago, and Carl Boettiger had mentioned this as
a way to see if the parameter estimates were in
Good morning Pascal,
We (Cressler, King, and myself) have a paper soon to be submitted that shows
that model selection is very robust, but parameter estimates, esp. alpha and
sigma are very difficult to estimate, because they have high variance.
Although the bias is manageable, it is very har
No, it's just univariate (I was responding to your example about doing a
single character). For multivariate OU, I think OUCH is the only game in
town.
Best,
Brian
___
Brian O'Meara
Assistant Professor
Dept. of Ecology & Evolutionary Biology
U. of Tennessee, Kn
Thanks for the reply, Brian. Does OUwie implement the multivariate model?
>From the documentation, I don't see any mention of applying it to multiple
traits at the same time.
cheers,
-Pascal
On Sat, Jun 29, 2013 at 11:32 PM, Brian O'Meara wrote:
> You're at best on the border of how many param
You're at best on the border of how many parameters you can estimate given
the size of your dataset. One thing you might try is running OUwie, which
also implements that model but uses a different optimizer and starting
values, though I wouldn't be surprised if you get similar answers. Trying a
gri
Hello,
Given a phylogeny with 29 tips, and 5 traits that each fit a OU model
better than a BM model of trait evolution (according to fitContinuous in
GEIGER), I would like to fit a multivariate OU model to these 5 traits
using the hansen() function in the OUCH package in R. The goal is to get
mult
