Quartet v1.1.0

• Pass trees directly to C, without writing to temporary intermediate file.
• Use TreeTools in place of TreeSearch, supporting new Splits class.
• Facilitate comparison between lists of multiple trees.
• Fix Latex error in vignettes.

Quartet v1.0.3

• Remove deprecated C function ptr_fun.
• Clarify some documentation pages.

Quartet v1.0.2

• Force R 3.5.0-style random number generation in examples, to ensure backward compatibility.
• Add caterpillar trees to sq_trees, to illustrate issues with partition-based distance metrics.

Quartet v1.0.1

• Improved portability of C++ code.

Quartet v1.0.0

New features

• Add functions to generate ternary plots from tree similarity measures.

Improvements

• Use tqDist for all quartet calculations.
• Remove single “splits” from splits objects.
• Simplify installation via github_install.
• Add missing details to documentation.

Modifications

• Function SimilarityMetrics now takes the output of QuartetStatus(trees), rather than a list of trees.
• Function SplitStatus now returns output using the same column headers as QuartetStatus
• Column N added to QuartetStatus output.
• Function names changed, to become more precise:
  • QuartetMetrics → SimilarityMetrics
  • MatchingSplits → SplitStatus
  • MatchingQuartets → QuartetStatus
  • Choices → AllQuartets

SlowQuartet v0.2.0

Modifications

• Add MatchingSplits function to calculate number of splits contradicted / unresolved.
• Add vignettes to document when the quartet metric may be preferable to other tree distance metrics.