[Bioperl-l] Posterior (and other values) from BEAST/treeannotator/FigTree tree nodes

Greg Baillie gb7 at sanger.ac.uk
Wed Jul 7 10:41:13 EDT 2010


Hi.

I'm trying to extract information (eg. posterior values) from nodes of 
trees generated using BEAST/treeannotator/FigTree.

The trees, which are in nexus format, seem to load OK, but when I 
iterate through the nodes looking for posterior values (/if ( 
$node->has_tag('posterior') ) {.../), none of the nodes seem to have 
posteriors.

In fact, none of the nodes have any tags (/my @tags = 
$node->get_all_tags(); print join ',', @tags/). And when I dump an 
entire tree using Data::Dumper, there is no sign of any of the node values.

Does TreeIO handle these values? If so, should I be looking somewhere 
other than the tags for the values?

Thanks.

Greg.



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