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FePhyFoFum / phyx

phylogenetics tools for linux (and other mostly posix compliant) computers
blackrim.org
GNU General Public License v3.0
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mean bootstrap support of trees in file #150

Open bioinfowheat opened 3 years ago

bioinfowheat commented 3 years ago

Hello,

I would like to filter a file of 1000 trees, such that any tree having mean boot strap support (mean across nodes) < threshold, would be removed. One way to do this is to just include mean bootstrap support per tree, in one of your summary commands of trees in a file. But I'm not sure what pxlstr includes. But it would be nice to filter directly, since densitree plotting is much better when one can remove low informative trees.

thanks, C

josephwb commented 3 years ago

Do you have some example input and output?

pxcolt can collapse nodes, but you want to flag trees, yes?

bioinfowheat commented 3 years ago

yup, trees.

just three tress, where the mean bootstrap values per tree vary (means = 80,75,50). I’d like to remove the tree if mean bootstrap of 50.

On Apr 28, 2021, at 1:22 PM, Joseph W. Brown @.***> wrote:

Do you have some example input and output?

pxcolt can collapse nodes, but you want to flag trees, yes?

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josephwb commented 3 years ago

I understand, but could you please provide example input files?