Package index • treestats

All functions

ILnumber(): ILnumber
area_per_pair(): Area per pair index
average_leaf_depth(): Average leaf depth statistic.
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 single tree.
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
i_stat(): Mean I statistic.
imbalance_steps(): Imbalance steps index
j_one(): \(J^1\) index.
l_to_phylo(): Convert an L table to phylo object
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
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
mean_branch_length_ext(): Mean length of external branch lengths of a tree
mean_branch_length_int(): Mean length of internal branches of a tree
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.
phylo_to_l(): Function to generate an ltable from a phy object.
phylogenetic_diversity(): Phylogenetic diversity at time point t
pigot_rho(): Pigot's rho
pitchforks(): Number of pitchforks
psv(): Phylogenetic Species Variability.
rebase_ltable(): rebase ltable
rogers(): Rogers J index of (im)balance.
root_imbalance(): Root imbalance
rquartet(): Rquartet index.
sackin(): Sackin index of (im)balance.
sshape(): s shape statistic 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 treestats: Collection of phylogenetic tree statistics
var_branch_length(): Variance of branch lengths of a tree
var_branch_length_ext(): Variance of external branch lengths of a tree
var_branch_length_int(): Variance of internal branch lengths of a tree
var_leaf_depth(): Variance of leaf depth statistic
var_pair_dist(): Variance of all pairwise distances.
wiener(): Wiener index