[Bioperl-l] nexus add_tree, get_trees, write tree in write_aln

Albert Vilella avilella at gmail.com
Thu Nov 9 07:15:20 EST 2006


I am musing on how to add trees to the AlignIO::Nexus objects.

In PAML we have this "add_tree" method, and "get_rst_trees", which we
could also apply to this case.

I also would like to hear some feedback on how to write_aln nexus
files that contain one or more trees in the object instance. Do we
want this by default? Only if a "with_trees" parameter is set?



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