This sounded wrong to me, as the OU process should be agnostic to the dataset:
There are no restrictions inherent in the OU process that apply particularly to
phylogenetic data, whether the tree is ultrametric or not. I re-read Slater
2014 and it is clear that you can use branch length
Prompted by Bruno's email, and similar requests by some students at the
Arnold & Felsenstein Evolutionary Quantitative Genetics course, we've
started adding ancestral state reconstruction to OUwie. It still needs
debugging and testing, but should be ready fairly soon. I do believe bayou
does
Just to follow off what Lucas said, but please note you cannot rescale
branches of a phylogeny using an OU model when the tree is
non-ultrametric (such as when it contains extinct, fossil taxa as
tips). Slater (2014, MEE) discusses this more in a brief correction to
Slater (2013).
I don't know if
Dear Klaus,
Thanks for pointing this out, that's exactly what I was looking for!
I have a question concerning the bootstrapping method and wheater it
makes sense to add the block bootstrap to better model adjacent that are
autocorrelated (presumably breaking the iid assumption).
But since it's
