Distances Between Phylogenetic Trees

AllSplitPairings | Variation of information for all split pairings |

CalculateTreeDistance | Wrapper for tree distance calculations |

ClusteringEntropy | Clustering entropy of all splits within a tree |

CompareAll | Distances between each pair of trees |

dot-MASTSizeEdges | Calculate MAST size from edge matrices. |

dot-PairMean | Mean of two numbers |

dot-TreeDistance | Calculate distance between trees, or lists of trees |

Entropy | Entropy in bits |

GeneralizedRF | Generalized Robinson-Foulds distance |

JaccardRobinsonFoulds | Jaccard-Robinson-Foulds metric |

KendallColijn | Kendall-Colijn distance |

LAPJV | Solve linear assignment problem using LAPJV |

MASTSize | Maximum Agreement Subtree size |

MatchingSplitDistance | Matching Split Distance |

median.multiPhylo | Median of a set of trees |

MeilaVariationOfInformation | Use variation of clustering information to compare pairs of... |

NNIDist | Approximate Nearest Neighbour Interchange distance |

NormalizeInfo | Normalize information against total present in both starting... |

NyeSimilarity | Nye _et al_. (2006) tree comparison |

PathDist | Path distance |

ReportMatching | List clades as text |

Robinson-Foulds | Robinson-Foulds distances, with adjustments for phylogenetic... |

SplitEntropy | Entropy of two splits |

SplitsCompatible | Are splits compatible? |

SplitSharedInformation | Shared information content of two splits |

SplitwiseInfo | Information content of splits within a tree |

SPRDist | Approximate Subtree Prune and Regraft distance |

TreeDistance | Information-based generalized Robinson-Foulds distances |

TreeDist-package | TreeDist: Distances between Phylogenetic Trees |

TreeDistPlot | Plot a simple tree |

VisualizeMatching | Visualise a matching |

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