v0.12.0
PhyloNetworks v0.12.0
new features:
- simulation of multivariate BM process
- NNI moves on semi-directed networks
bug fixes in:
- hybridlambdaformat
- neighbor-joining
- likelihood of discrete traits: the bug affected data with >1 trait on non-tree networks
Closed issues:
- hardwiredCluster does not accept Int taxa (#39)
- strange behavior of plot/writeTopology after deleteLeaf! (#84)
- Problem when analyzing choice of h (#111)
- Reroot conflicts (#112)
- error in hybridlambdaformat (#113)
- readTrees2CF does not work (#118)
- wrong warning readTableCF (#120)
- minor typo in documentation (#125)
Merged pull requests:
- Bug fix: wrong net.node in nj! function (#105) (@jokeitei)
- Nearest Neighbor Interchange Moves in PhyloNetworks (#106) (@coraallensavietta)
- major bug fix for likelihood of discrete traits (#107) (@cecileane)
- Moves (#109) (@coraallensavietta)
- Optimize Network Wrappers (#114) (@coraallensavietta)
- Install TagBot as a GitHub Action (#115) (@JuliaTagBot)
- phyLiNC Bug Fixes (#117) (@coraallensavietta)
- gradient-based optimization of branch lengths (#119) (@cecileane)
- AddHybridEdgeLiNC Bug Fix (#121) (@coraallensavietta)
- bug fixes: root and gamma NaN (#123) (@coraallensavietta)
- implementing multivariate BM process (#124) (@gabehassler)
- hardwiredClusterDistance fix (#127) (@coraallensavietta)
- models for rate variation across sites: +I and +G+I (#128) (@cecileane)
- update to DataFrames v0.21, CSV v0.7 (#131) (@cecileane)
- update to BioSymbols 4.0, BioSequences 2.0, add FASTX (#132) (@cecileane)
- prep for v0.12.0 (#133) (@cecileane)