Dear Sergio,
I do not use R very much, relying instead on our Matlab programs that accompany
Lavin et al. (2008):
Lavin S.R., W.H. Karasov, A.R. Ives, K.M. Middleton, and T. Garland Jr. 2008.
Morphometrics of the avian small intestine compared with that of nonflying
mammals: a phylogenetic app
Dear all,
I'm trying to perform a PGLS with arbitrary branch lengths (I used branch
lengths = 1). The tree is non-ultrametric. Here is a result with Pagel's
Lambda:
vf<-diag(vcv(tree))
fit<-gls(FCLrelative~LogBodymass,correlation=Pagel,data=DF,method="ML",weights=varFixed(-vf))
summary(fit)
Model:
Hi everyone,
I'm relatively new in phylogenetic comparative methods. I'm a little
confused about branch length transformations. I'm using a tree with
divergence time (My) as branch lengths. When I use corPagel, corGrafen or
corMartins in R, the branch lengths, are the branch lengths automatically
Thank you all for your responses, they have been of great use.
First, I have not rescaled the tree, thus alpha values are really rare
and they indicate a rate adaption very fast.
For the selection of models I have used AICc and then I have analysed the
reliability of the parameters with a boots
