Jamie
YaBB Newbies
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Feed your monkey!
Posts: 7
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Sergei,
I am trying to run SubtreeSelectionComparison.bf and specify an internal node as the 'subtree'. I've run into a behavior in HYPHY that I can't understand or work-around. Consider the following tree:
( ib, ((((ch,dm),(sr,hw)),ht),er) , ((bu,((me,(hl,is)),do)),ao) );
I want to specify the subtree ((((ch,dm),(sr,hw)),ht),er) as the focal clade. in SSC.bf
When I open the treefile directly in HYPHY using 'open tree' it seems to read it correctly as an unrooted tree (left of figure). But when opened via the SSC.bf it forces a very unhelpful rooting/ordering of taxa (right of figure) making it impossible to specify my desired subtree.
Why is it forcing this weird rooting and what can I do to make it read the file in a more useful way? Am I doing something wrong with the input somehow?
Thanks, Jamie
problem_trees.png
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