[Biopython] comparing trees
Chris Friedline
cfriedline at vcu.edu
Wed May 21 15:14:09 UTC 2014
Most of the time when I do this, I kick the tree to R (via RPy2) and use
ape/phangorn. If you use IPython, it's even easier with the R magics.
Krister wrote:
> Thanks for the response Chris.
> I use the majority consensus and the symmetric difference in dendropy...
> they don't seem to have any others.
>
> I find it bizarre that these are written in the wiki under "TODO:". I
> thought that meant the documentation was TODO, not the code!
>
>
> On 21 May 2014 16:04, Chris Friedline <cfriedline at vcu.edu
> <mailto:cfriedline at vcu.edu>> wrote:
>
> Check out dendropy. These routines are also in R (ape and phangorn).
>
> Chris
>
>
> On Wed, May 21, 2014 at 7:41 AM, Krister <thekswenson at gmail.com
> <mailto:thekswenson at gmail.com>> wrote:
>
> I'm looking for a library for comparing trees.
> I found the following entries in the cookbook:
> http://biopython.org/wiki/Phylo_cookbook#Comparing_trees
>
> Are these actually implemented?
> I can't seem to find them anywhere.
>
> Thanks for the help
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