LinguaPhylo/LPhyBeast

Issues

• Add UpDownOperator to PopulationFunction

  #139 opened 7 months ago by yxu927
  2

• Model misspecification test

  #137 opened 7 months ago by walterxie
  3

• Refactor LPhyBeastConfig

  #138 opened 7 months ago by walterxie
  0

• use getAsRealParameter not getBEASTObject

  #133 opened 9 months ago by walterxie
  0

• It should exclude Value's type not the Value itself

  #135 opened 7 months ago by walterxie
  0

• use getExcludedGenerator first

  #136 opened 7 months ago by walterxie
  0

• Starting value and tree problems for ASM package

  #134 opened 8 months ago by walterxie
  0

• Release 1.1.0

  #132 opened 9 months ago by walterxie
  0

• Vectorised Alignments not link to the correct index in tree likelihood

  #131 opened 9 months ago by walterxie
  3

• Picocil cannot take names containing spaces

  #107 opened 2 years ago by walterxie
  0

• Command line args do not behaviour properly when using relative paths

  #104 opened 10 months ago by walterxie
  2

• Update standard operators to Bactrian operators used in BEAST 2.7.x

  #109 opened 10 months ago by walterxie
  5

• migration to lphy 1.5 and beast2.7.6

  #112 opened 10 months ago by walterxie
  1

• Migrate to lphy1.5 and beast2.7.6

  #130 opened 10 months ago by walterxie
  1

• Handle the strange implementation of BDSS ignoring tree operator

  #121 opened a year ago by walterxie
  2

• AdaptableOperatorSampler and AdaptableVarianceMultivariateNormalOperator

  #128 opened 10 months ago by walterxie
  0

• ability to change the value of certain constants

  #114 opened a year ago by walterxie
  1

• Recognise LPhy Macro in LPhyBEAST

  #125 opened a year ago by walterxie
  3

• release 1.0.5

  #127 opened a year ago by walterxie
  0

• null Exception when not using Macro

  #126 opened a year ago by walterxie
  0

• change constants in command line arguments

  #124 opened a year ago by walterxie
  4

• WilsonBalding and WideExchange should be more like size^0.2

  #122 opened a year ago by walterxie
  1

• Github action has a problem again and again ...

  #123 opened a year ago by walterxie
  0

• release 1.0.3

  #120 opened a year ago by walterxie
  0

• add a "logEvery" command line option

  #116 opened a year ago by walterxie
  0

• BirthDeathSerialSampling error

  #118 opened a year ago by walterxie
  4

• Add lphy script to the top of XML

  #94 opened a year ago by walterxie
  1

• Re-design TreeOperatorStrategy

  #119 opened a year ago by walterxie
  2

• Is there the reverse functionality?

  #117 opened a year ago by MordorianGuy
  2

• set up pathsampling

  #115 opened a year ago by walterxie
  0

• Windows logging issue

  #113 opened a year ago by walterxie
  1

• prepare release 1.0.2

  #111 opened a year ago by walterxie
  0

• Release 1.0.1

  #110 opened a year ago by walterxie
  0

• BEAST new loader not working in GitHub

  #106 opened a year ago by walterxie
  0

• Release 1.0.0

  #102 opened a year ago by walterxie
  0

• LPhyBEAST release dependency description incorrect

  #108 opened a year ago by kche309
  0

• Should use getAsRealParameter()

  #90 opened 2 years ago by walterxie
  0

• simulate alignment from the 2nd lphy script

  #96 opened 2 years ago by walterxie
  3

• Log all intermediate alignments

  #105 opened 2 years ago by walterxie
  0

• Alignment editor

  #103 opened 2 years ago by walterxie
  0

• Migrate to beast 2.7

  #98 opened 2 years ago by walterxie
  1

• NoClassDefFoundError: groovy.lang.Closure

  #101 opened 2 years ago by walterxie
  2

• Create LPhyBeastConfig to contain all settings

  #95 opened 2 years ago by walterxie
  1

• Use LPhyBeastConfig to contain all settings

  #97 opened 2 years ago by walterxie
  0

• Compress constants sites from the original alignment

  #89 opened 2 years ago by walterxie
  1

• specify the right size for SubtreeSlide

  #93 opened 2 years ago by walterxie
  2

• LPhyBEAST wraps the execution of BEAST

  #92 opened 2 years ago by walterxie
  0

• phyloCTMC.getQ() => phyloCTMC.getQValue()

  #91 opened 2 years ago by walterxie
  0

• general approach to convert a unicode string to an ascii string for variable names

  #88 opened 2 years ago by walterxie
  1

• release 0.4.2

  #87 opened 2 years ago by walterxie
  0