Sequential Analysis of Phylogenies

branchLengthMetrics | Produces a dataframe of tree branch length statistics |

compute.distance.matrix | Computes a pairwise distance matrix |

expand.distance.matrix | Updates a pre-existing distance matrix |

imbalanceMetrics | Produces a dataframe of tree imbalance statistics |

imbalanceThreshold | Produces a list of a confidence intervals given a tree... |

pairwise.distance | Calculate pairwise distance between two sequences |

permuteTrees | Produces a list of permuted trees with the same tip and... |

plot.branch.lengths | Plots the average branch lengths over time |

prunePermute | Produces a list of a list of sequentially growing trees given... |

simulatetree | Simulate tree and sequences in two-population SIR-model |

timeprune | Prune tree in time order |

tiplength | Extracts the length of a tip from a tree |

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