Re: [R-sig-phylo] Analysis with Multiple cores on Mac Workstation

I have found that .compressTipLabel can take quite a while for larger tree distributions. By vectorizing the for loop, I've got substantial speed improvements. For really big distributions, multithreading definitely helps (but does come with a memory cost). Code is below. HTH. Joseph. #

[R-sig-phylo] issue with cophenetic.phylo()

Thanks Klaus, The problem was that I expected logically that two nodes would have the same distance. For example with ((A,B),C), I expect d(A,C)==d(B,C). I'm sure for most people's purposes it isn't a problem that they aren't exactly equal, but if you apply functions involving the ranks of the