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bodenlab / GRASP

Graphical Representation of Ancestral Sequence Predictions
GNU Affero General Public License v3.0
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meaning of the numbers associated to internal node names #69

Closed eranbio closed 4 years ago

eranbio commented 4 years ago

Hello, I am using the command line version and see that there is a float number associated with underscore to the internal node names, e.g.: N1_0.390. Can briefly explain the meaning of this number? Thanks, Eran

mikaelboden commented 4 years ago

Hi Eran, GRASP does not add this number; it puts the prefix N there however, followed by underscore and a label supplied by the Newick input file if present. I strongly suspect that the Newick file was generated by a program that annotates each branch point with bootstrap stats. FastTree does this by default (and you can turn it off with -nosupport I think). You can of course edit the file manually to remove those internal numbers; be careful not to remove distances though.

Mikael

eranbio commented 4 years ago

Thanks Mikael! Indeed I was using FastTree. So it is all clear now.