[R-sig-phylo] chronoMPL/APE

2017-01-17 Thread Juan Antonio Balbuena
The "strange" shape of your tree seems to result from negative branch lengths. If your goal is to just obtain an ultrametric tree under no specific assumptions, use compute.brtime (yourtree, method="coalescent", force.positive=TRUE). Where 'yourtree'

[R-sig-phylo] chronoMPL/APE

2017-01-17 Thread Jacqueline Heckenhauer
Dear all, I just started to work with R and I have the following problem: I calculated a phylogenetic tree in RAmML. For further analysis, I need an ultrametric tree which I wanted to make with the chronoMPL command in APE. However, the tree was not dichotomous and I used the