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inevolbioinfo/gotree (press backspace or delete to remove)

Hi, My question is not really aboat gotree, just want to know do you have any idea to deal with those negative distance branches on NJ tree? Replace all negative value using 0, or all branches plus the ...
  • xiekunwhy
  • 1
  • Opened 
    on Jun 19, 2024
  • #26

When drawing radial (-r) svg images from newick trees labels get placed too close to tips and get rotated strangely. I guess it looks kind of OK with the fixed 8px font-size (which is way to small for ...
  • hinz1
  • Opened 
    on May 30, 2024
  • #25

I noticed that if there was any whitespace after the semicolon, parsing fails and gotree returns a EOF error. MWE gotree generate yuletree --seed 42 | sed s/;/; /g | gotree stats Yields the following ...
  • lucblassel
  • Opened 
    on Apr 28, 2024
  • #22

Hi, Is it possible to use gotree to add constrain information to a tree to prepare mcmctree input file For example, change ((((agl,(cma,dvi)),sor),((tmo,zmo),tca)),ota); to 8 1 ((((agl,(cma,dvi) B(79.2, ...
  • xiekunwhy
  • 3
  • Opened 
    on Sep 13, 2023
  • #21

dear, I have successfully managed to apply gotree to a set of 200 bacterial genomes. However, the results I have obtained are incongruent to those I obtained with a multiple-locus sequence analysis. I ...
  • pavlo888
  • Opened 
    on Mar 14, 2022
  • #18

Hi, No options to give tip number when using generate, I think there is a bug. image Best, Kun
  • xiekunwhy
  • 2
  • Opened 
    on Dec 16, 2021
  • #17

I have been running gotree prune on a 2 million tip SARS-CoV-2 tree to remove what is now quite a long list of tips. For some tips it crashes, but for all of these I can manually update the newick file ...
  • rmcolq
  • 8
  • Opened 
    on Nov 26, 2021
  • #16

Hello - I ve noticed when writing trees to file with gotree draw svg and gotree draw png tip labels get cut off. I think, for SVG at least, this is because only +60 is added to the width (and height) ...
  • szufan
  • 3
  • Opened 
    on Jun 10, 2021
  • #15

Hello. Thank you for gotree. At the moment, the installation of version 0.4.0 from Bioconda seems to have a bug where the version string is not displayed: % gotree version I am wondering if this an ...
  • andersgs
  • 4
  • Opened 
    on Feb 22, 2021
  • #14

I want to emulate nw_labels -I whicj prints each tip label (not internal nodes) labels one per line. But I have looked many times over but can not see how to do this in gotree. Hope you can point me ...
  • tseemann
  • 3
  • Opened 
    on Feb 18, 2021
  • #13
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