Re: [R-sig-phylo] Mixup with plotted bootstrap values

2011-02-24 Thread Emmanuel Paradis
Alastair, That's indeed the correct work-around. The is because a different code is used whether the NEXUS file has a TRANSLATE block or not. I'll fix the bug very soon. Cheers, Emmanuel PS: thanks for the tip on using Figtree. Alastair Potts wrote on 24/02/2011 14:57: Hi All, I think I

[R-sig-phylo] Plotting bootstrap values from one tree onto the majority rule consensus tree

2011-02-24 Thread Alastair Potts
Hi all, Me again. I was wondering if anyone had a way to plot the bootstrap values from one tree onto another tree. I have a majority rule consensus tree and a bootstrap tree, both generated by PAUP, but not identical (but very close to identical). I would like to plot the bootstrap values

Re: [R-sig-phylo] Plotting bootstrap values from one tree onto the majority rule consensus tree

2011-02-24 Thread Christoph Heibl
Hi Alastair, On Feb 24, 2011, at 12:40 PM, Alastair Potts wrote: Hi all, Me again. I was wondering if anyone had a way to plot the bootstrap values from one tree onto another tree. I have a majority rule consensus tree and a bootstrap tree, both generated by PAUP, but not identical (but

Re: [R-sig-phylo] Plotting bootstrap values from one tree onto the majority rule consensus tree

2011-02-24 Thread Jeremy Brown
Hi Alastair, It's not an R-based solution, but I've written a small python program to handle this very task. It takes advantage (and requires the previous installation) of the DendroPy library written by Jeet Sukumaran and Mark Holder. It should be able to handle polytomies without a problem