Man pages for treestats
Phylogenetic Tree Statistics
| area_per_pair | Area per pair index |
| average_leaf_depth | Average leaf depth statistic. The average leaf depth... |
| avg_ladder | Average ladder index |
| avg_vert_depth | Average vertex depth metric |
| b1 | B1 metric |
| b2 | B2 metric |
| beta_statistic | Aldous' beta statistic. |
| blum | Blum index of (im)balance. |
| branching_times | Branching times of a tree |
| calc_all_stats | Apply all available tree statistics to a single tree |
| calc_brts_stats | Apply all tree statistics related to branching times to a... |
| calc_topology_stats | Calculate all topology based statistics for a single tree |
| cherries | Cherry index |
| colless | Colless index of (im)balance. |
| colless_corr | Corrected Colless index of (im)balance. |
| colless_quad | Quadratic Colless index of (im)balance. |
| create_fully_balanced_tree | Create a fully balanced tree |
| create_fully_unbalanced_tree | Create an unbalanced tree (caterpillar tree) |
| crown_age | Crown age of a tree. |
| diameter | Diameter statistic |
| double_cherries | Double Cherry index |
| eigen_centrality | Eigen vector centrality |
| entropy_j | Intensive quadratic entropy statistic J. |
| ew_colless | Equal weights Colless index of (im)balance. |
| four_prong | Four prong index |
| gamma_statistic | Gamma statistic |
| ILnumber | ILnumber |
| imbalance_steps | Imbalance steps index |
| j_one | J^1 index. |
| laplacian_spectrum | Laplacian spectrum statistics, from RPANDA |
| list_statistics | Provides a list of all available statistics in the package |
| ltable_to_newick | Convert an L table to newick string |
| l_to_phylo | Convert an L table to phylo object |
| make_unbalanced_tree | Stepwise increase the imbalance of a tree |
| max_betweenness | Maximum betweenness centrality. |
| max_closeness | Maximum closeness |
| max_del_width | Maximum difference of widths of a phylogenetic tree |
| max_depth | Maximum depth metric |
| max_ladder | Maximum ladder index |
| max_width | Maximum width of branch depths. |
| mean_branch_length | Mean branch length of a tree, including extinct branches. |
| mean_branch_length_ext | Mean length of external branch lengths of a tree, e.g. of... |
| mean_branch_length_int | Mean length of internal branches of a tree, e.g. of branches... |
| mean_i | Mean I statistic. |
| mean_pair_dist | Mean Pairwise distance |
| minmax_adj | Adjancency Matrix properties |
| minmax_laplace | Laplacian Matrix properties |
| mntd | Mean Nearest Taxon distance |
| mw_over_md | Maximum width of branch depths divided by the maximum depth |
| nLTT | Normalized LTT statistic |
| nLTT_base | Reference nLTT statistic |
| number_of_lineages | Number of tips of a tree, including extinct tips. |
| phylogenetic_diversity | Phylogenetic diversity at time point t |
| phylo_to_l | Function to generate an ltable from a phy object. |
| pigot_rho | Pigot's rho |
| pitchforks | Number of pitchforks |
| psv | Phylogenetic Species Variability. |
| rebase_ltable | a function to modify an ltable, such that the longest path in... |
| rogers | Rogers J index of (im)balance. |
| root_imbalance | Root imbalance |
| rquartet | Rquartet index. |
| sackin | Sackin index of (im)balance. |
| stairs | Stairs index |
| stairs2 | Stairs2 index |
| sym_nodes | Symmetry nodes metric |
| tot_coph | Total cophenetic index. |
| tot_internal_path | Total internal path length |
| tot_path_length | Total path length |
| tree_height | Height of a tree. |
| treeness | Treeness statistic |
| treestats-package | Collection of phylogenetic tree statistics |
| var_branch_length | Variance of branch lengths of a tree, including extinct... |
| var_branch_length_ext | Variance of external branch lengths of a tree, e.g. of... |
| var_branch_length_int | Variance of internal branch lengths of a tree, e.g. of... |
| var_leaf_depth | Variance of leaf depth statistic |
| var_pair_dist | Variance of all pairwise distances. |
| wiener | Wiener index |
