Re: [R-sig-phylo] get branch lengths from distances to root

One way would be to label the root to make it a leaf, and apply NJ. Neighbor-joining reconstructs the original branch lengths (and topology) given tree-distances between the leaves. Cécile On Nov 30, 2016, at 10:30 AM, Juan Antonio Balbuena > wrote:

Re: [R-sig-phylo] get branch lengths from distances to root

Hola Juan. If your heights (distances) above the root are a vector h in the order of the node indices of the tree (in tree$edge) it would be as easy as: tree$edge.length<-rep(NA,nrow(tree$edge)) for(i in 1:nrow(tree$edge)) tree$edge.length[i]<-h[tree$edge[i,2]]-h[tree$edge[i,1]] If

[R-sig-phylo] get branch lengths from distances to root

Hi all This is a simple question: I have a set of ultrametric trees with information on their topology but without branch lengths. On a separate file, I have the distances of each node and leaf to the root. Can someone instruct me on how to to compute the

Re: [R-sig-phylo] phylogenetic signal different from BM and random

Dear Florian, What do you mean, exactly? Do you mean the K statistics is, say, about 0.5, and that the randomizaton test for phylogenetic signal (Blomberg et al. 2003), which is based on the MSE not K, is significant, indicating that you do have some degree of signal (more than zero)? Cheers,