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amkozlov / raxml-ng

RAxML Next Generation: faster, easier-to-use and more flexible
GNU Affero General Public License v3.0
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Could not see bootstrap values on .bestTree #110

Closed Niv94 closed 3 years ago

Niv94 commented 3 years ago

Hi, I am a graduate student running RaxML for my SNP dataset

I recently did a "ML + thorough bootstrap + consensus" analysis in RaxmlGUI using Raxml-ng. As outputs - I got a “.bestTree” and “.bootstraps” files. I tried to open the .bestTree file in FigTree and I did not see the bootstrap values on the tree. Am I doing something wrong? Could you please guide me?

Thank you so much, Nivi

amkozlov commented 3 years ago

Hi Nivi,

with a standalone version of raxml-ng, bootstrap support values are printed into .support file, see: https://github.com/amkozlov/raxml-ng/wiki/Output:-files-and-settings#output-files

Not sure how it works in raxmlGUI though, so if you have questions, please contact raxmlGUI developers directly:

https://github.com/AntonelliLab/raxmlGUI

Best, Alexey

Niv94 commented 3 years ago

Thank you so much. Yes the .support file works.

On Dec 14, 2020, at 11:19 AM, Alexey Kozlov notifications@github.com wrote:

Hi Nivi,

with a standalone version of raxml-ng, bootstrap support values are printed into .support file, see: https://github.com/amkozlov/raxml-ng/wiki/Output:-files-and-settings#output-files https://github.com/amkozlov/raxml-ng/wiki/Output:-files-and-settings#output-files Not sure how it works in raxmlGUI though, so if you have questions, please contact raxmlGUI developers directly:

https://github.com/AntonelliLab/raxmlGUI https://github.com/AntonelliLab/raxmlGUI Best, Alexey

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amkozlov commented 3 years ago

great!