2.3.8

Notable Changes

• LEISR 0.4 (Stephanie Spielman and Sergei Pond)
• Bug fixes for #703 and #712 (Sergei Pond and Steven Weaver)

Please see the associated pull request for a complete listing of commits included in this release.

2.3.7

Notable Changes

• [#696] Five new amino acid models (Stephanie Spielman)

  • "mtMAM" - "Empirical model of protein evolution for mammalian mitochondrial genomes from Yang N, Nielsen R, and Hasegawa M. (1998). Ref: http://dx.doi.org/10.1093/oxfordjournals.molbev.a025888,
  • "cpREV" - "Empirical model of protein evolution for chloroplast genomes from from Adachi et al. (2000). Ref: https://www.ncbi.nlm.nih.gov/pubmed/10795826"
  • "HIVBm" - "Empirical model of protein evolution for between-host HIV sequences from Nickle et al. (2007). Ref: https://doi.org/10.1371/journal.pone.0000503"
  • "HIVWm" - "Empirical model of protein evolution for within-host HIV sequences from Nickle et al. (2007). Ref: https://doi.org/10.1371/journal.pone.0000503"
  • "AB" - "Empirical model of protein evolution for antibody sequences from Mirsky et al. (2015). Ref: https://doi.org/10.1093/molbev/msu340"

• [#683] GARD results formatted to be consistent with other methods (Steven Weaver)

• Bug fixes for #685, #687, #689, and #700 (Sergei Pond)

Please see the associated pull request for a complete listing of commits included in this release.

2.3.6

Notable Changes

• Includes LEISR - Likelihood Estimation of Individual Site Rates (Stephanie Spielman)
• Bug fixes

Please see the associated pull request for a complete listing of commits included in this release.

2.3.5

Notable Changes

• Xcode 9 compatibility

Addresses issue where LLVM 4.0 (which is part of Xcode 9) throws a fatal error for ordered comparison between pointer and zero.

2.3.4

Notable Changes

• [e2301c6] A new binary model has been added in libv3 (Stephanie Spielman)
• [e8c365e] A new DNA model (JC69) (Stephanie Spielman)

Other changes include additional tests and bug fixes to HBL.
Please see #623 for a complete listing of commits included in this release.

2.3.3

• FUBAR migration to new library
• bug fixes

2.3.2

• Fixes tree iteration bug exposed by FLEA
• Includes aBSREL unit test
• Build integration improvements

2.3.1

Merge pull request #613 from stevenweaver/2.3.1-alpha

Merge 2.3.1 into master

2.3.0

This is a reasonable recent version which could be used to support HBL written in 2016-2017

2.2.7

• GCC 6 compatibility
• Fixes version recognition in BUSTED batch file
• Adds RELAX to list of Standard Analyses in GUI