Issues

• How to use pxcomp

  FePhyFoFum/phyx#190 · Filter by author deyuanyang opened on Apr 19, 2025
  1

• Wiki overhaul

  documentation
  FePhyFoFum/phyx#189 · Filter by author josephwb opened on Oct 25, 2024
  2

  

• Removal of hypervariable sequences

  feature request
  FePhyFoFum/phyx#187 · Filter by author BenKuhnhaeuser opened on Oct 24, 2024
  2

• pxrms .txt file using wildcard

  FePhyFoFum/phyx#183 · Filter by author luizmchado opened on Mar 15, 2024
  6

• pxssplit: command not found

  FePhyFoFum/phyx#182 · Filter by author sbrobeson opened on Feb 22, 2024
  6

• pxcomp outputs an enormous file, or rejects unaligned sequences.

  FePhyFoFum/phyx#175 · Filter by author Gullumluvl opened on Feb 9, 2023
  6

• phylip gets corrupted when piped

  bug
  FePhyFoFum/phyx#165 · Filter by author josephwb opened on Aug 14, 2021
  3

  

• new program: pxuncat

  feature request
  FePhyFoFum/phyx#164 · Filter by author josephwb opened on Aug 11, 2021
  

• main_strec.cpp is taking a _looooong_ time to compile

  enhancement
  FePhyFoFum/phyx#163 · Filter by author josephwb opened on Aug 11, 2021
  

• compilation seems to hang on main_strec.cpp

  FePhyFoFum/phyx#162 · Filter by author josephwb opened on Jul 10, 2021
  

• Allow for adjustment of precision/sig digits

  FePhyFoFum/phyx#160 · Filter by author HeatherKates opened on Jul 6, 2021
  1

• mean bootstrap support of trees in file

  FePhyFoFum/phyx#150 · Filter by author bioinfowheat opened on Apr 28, 2021
  3

• enforce multiple-of-3 for aa2cdn &pxtlate, but also add option to "ignore extra junk"

  enhancementquestion
  FePhyFoFum/phyx#146 · Filter by author josephwb opened on Apr 22, 2021
  4

  

• Need to run tests on i386

  enhancementfeature requestpriority
  FePhyFoFum/phyx#145 · Filter by author josephwb opened on Apr 22, 2021
  4

  

• pxcomp deal with missing data

  FePhyFoFum/phyx#136 · Filter by author josephwb opened on Aug 27, 2020
  4

  

• pxtcol needs a test, example data

  FePhyFoFum/phyx#125 · Filter by author josephwb opened on Dec 19, 2019
  

• pxtcomb (tree grafter) does not work

  bug
  FePhyFoFum/phyx#124 · Filter by author josephwb opened on Dec 18, 2019
  

• Add leaf stability index

  feature request
  FePhyFoFum/phyx#120 · Filter by author josephwb opened on Dec 11, 2019
  

• Request to add feature to generate consensus sequences

  FePhyFoFum/phyx#105 · Filter by author Cactusolo opened on Jun 18, 2019
  3

  

• Preserve BEAST-style annotations

  feature request
  FePhyFoFum/phyx#91 · Filter by author josephwb opened on Sep 1, 2018
  

• Using pxclsq to trim codon alignments

  feature request
  FePhyFoFum/phyx#90 · Filter by author flopezo opened on Jun 8, 2018
  5

• vcf2fasta - new options?

  FePhyFoFum/phyx#72 · Filter by author sprocha opened on Dec 5, 2017
  7

• pxltr should preserve annotations if present

  FePhyFoFum/phyx#65 · Filter by author josephwb opened on Jul 17, 2017
  8

• Program to rotate nodes (feature request)

  enhancementfeature request
  FePhyFoFum/phyx#64 · Filter by author HeatherKates opened on Jun 22, 2017
  1

  

• Program that collapses poorly supported edges

  enhancementfeature request
  FePhyFoFum/phyx#52 · Filter by author josephwb opened on Jan 31, 2017
  6