[R-sig-phylo] phylogenetic regression and pPCA with intraspecific variability

Dear all, I am using pPCA with size corrected traits (obtained by phyl.resid) as a part of ecomorphology study of 20 salamander’s species (whole process is done with mean values of traits per species). Few days ago I discovered a way to test for phylogenetic signal (Blomberg’s K) with

Re: [R-sig-phylo] Rooting and rotating in ape

Sorry, forgot the most important part of R version [1] R version 2.15.3 (2013-03-01) On Aug 19, 2013, at 10:12 PM, Liam J. Revell liam.rev...@umb.edu wrote: Hi Kamila. 1) A tree stored in memory as an object of class phylo can have a root edge - but no root label. One option (if your tree

Re: [R-sig-phylo] Rooting and rotating in ape

Hi Kamila. The only two tricks I can suggest are: tree-reorder(reorder(tree,pruningwise)) ## or tree-read.tree(text=write.tree(tree)) Sometimes functions in ape other packages might produce phylo objects as output that have a nonstandard edge order these steps can often be used to