Hi Daniel,
Daniel Rafael Miranda-Esquivel wrote on 20/10/2011 21:38:
Hello everyone,
I am running a majority consensus in a set of trees where some of them
are polytomic, something like this
(A,((B,C),(D,(E,(F,G)))));
(A,((B,C),(D,(F,(E,G)))));
(A,(D,(B,(C,(E,F,G)))));
using this command line
majrule.tree<-consensus(initial.trees, p=0.5001)
The trees are read and written back to a file with no problem, but the
consensus freezes and returns nothing,
The bug is inside the C code of prop.part(), so there's no obvious fix.
This will be fixed in the next version of ape.
Is it a way to solve this?
In the above example, you can delete the 3rd tree and replace it by these 2:
(A,(D,(B,(C,((E,F),G)))));
(A,(D,(B,(C,(E,(F,G))))));
since the consensus will collapse (E,F,G) but with real data this might
not be practical.
Best,
Emmanuel
All the best,
Daniel
--
Emmanuel Paradis
IRD, Jakarta, Indonesia
http://ape.mpl.ird.fr/
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