Perhaps I should have said.
I'm well aware PAUP* 4.0b10 can calculate MAST for _small_ trees but
it refuses to even try for moderate to large trees. Unless this has
changed in the new PAUP I assume it's still a limitation?
```
paup> treedist metric=agreement;
Error(#647): Trees must have maximal degree less than or equal to 32 in this
implementation of the agreement-subtree metric algorithm.
```
On 21 December 2015 at 16:11, Mark Holder <mthol...@gmail.com> wrote:
> Hi,
> PAUP* calculates maximum agreement trees.
> cheers,
> Mark
>
> On Mon, Dec 21, 2015 at 9:42 AM, Ross Mounce <ross.mou...@gmail.com> wrote:
>> I'd like to compute a maximum agreement subtree (MAST) from two large
>> (2269 taxa) unrooted, non-binary trees, each of identical taxa. It's
>> simply a comparison of a reference tree to a computed tree.
>>
>> The data is here as simple Newick, no branch lengths:
>> https://gist.github.com/rossmounce/faf85ee4ea05b79a3d3d
>>
>> Is there anything in R that can compute the MAST for two large trees?
>>
>> It seems like if anything can do it, it would be Dendroscope but
>> despite a dazzling array of options I can't seem to find MAST. Non-R
>> solutions also welcome.
>>
>>
>> Thanks,
>>
>> Ross
>>
>>
>> --
>> --
>> -/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-
>> Ross Mounce, PhD
>> Dept. of Plant Sciences, University of Cambridge
>> www.rossmounce.co.uk
>>
>> _______________________________________________
>> R-sig-phylo mailing list - R-sig-phylo@r-project.org
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>
>
>
> --
> Mark Holder
>
> mthol...@gmail.com
> mthol...@ku.edu
> http://phylo.bio.ku.edu/mark-holder
>
> ==============================================
> Department of Ecology and Evolutionary Biology
> University of Kansas
> 6031 Haworth Hall
> 1200 Sunnyside Avenue
> Lawrence, Kansas 66045
>
> lab phone: 785.864.5789
> fax (shared): 785.864.5860
> ==============================================
--
--
-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-
Ross Mounce, PhD
Dept. of Plant Sciences, University of Cambridge
www.rossmounce.co.uk
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