Claddis-package | Measuring Morphological Diversity and Evolutionary Tempo |

align_matrix_block | Aligns a phylogenetic matrix block |

assign_taxa_to_bins | Assign taxa to time bins |

bin_changes | Counts the changes in a series of time bins |

bin_character_completeness | Phylogenetic character completeness in time-bins |

bin_edge_lengths | Edge-lengths present in time-bins |

build_cladistic_matrix | Creates a morphological data file from a matrix |

calculate_morphological_distances | Get distance matrices from a cladistic matrix |

Claddis | Measuring Morphological Diversity and Evolutionary Tempo |

compactify_matrix | Collapses matrix to unique character state distributions |

date_nodes | Returns node ages for a time-scaled tree |

day_2016 | Character-taxon matrix from Day et al. 2016 |

estimate_ancestral_states | Ancestral Character State Estimation |

find_descendant_edges | Gets descendant edges of an internal node |

find_linked_edges | Find linked edges for a tree |

find_minimum_spanning_edges | Get edges of minimum spanning tree |

find_mrca | Find ancestor |

fix_root_time | Fixes root.time after taxa have been pruned from a tree |

gauthier_1986 | Character-taxon matrix from Gauthier 1986 |

map_dollo_changes | Stochastic Character Map For Dollo Character |

map_stochastic_changes | Finds all state changes on a tree using stochastic character mapping |

match_tree_edges | Edge matching function |

michaux_1989 | Character-taxon matrix from Michaux 1989 |

ordinate_cladistic_matrix | Principal Coordinates on a Cladistic Matrix |

partition_time_bins | Time bin partitioner |

plot_changes_on_tree | Plots character changes on branches |

plot_chronophylomorphospace | Chronophylomorphospace Plot |

plot_morphospace | Plot Morphopace |

plot_morphospace_stack | Plot stacked ordination spaces |

plot_multi_morphospace | Plot Multiple Morphopaces |

plot_rates_character | Visualize a rate test time series |

plot_rates_time | Visualize a rate test time series |

plot_rates_tree | Visualize a rate test time series |

print.cladisticMatrix | Compact display of a cladistic matrix |

prune_cladistic_matrix | Prunes a character matrix of characters or taxa |

read_nexus_matrix | Reads in a morphological #NEXUS data file |

safe_taxonomic_reduction | Safe Taxonomic Reduction |

safe_taxonomic_reinsertion | Reinsert Safely Removed Taxa Into A Tree |

test_rates | Discrete character rates across trees, time, and character types |

trim_marginal_whitespace | Trims marginal whitespace |

trim_matrix | Trims a morphological distance matrix |

write_nexus_matrix | Writes out a morphological #NEXUS data file |

write_tnt_matrix | Writes out a morphological TNT data file |