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  "Title": "Phylogenetic Tree Statistics",
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  "Maintainer": "Thijs Janzen <thijsjanzen@gmail.com>",
  "Description": "Collection of phylogenetic tree statistics, collected\nthroughout the literature. All functions have been written to\nmaximize computation speed. The package includes umbrella\nfunctions to calculate all statistics, all balance associated\nstatistics, or all branching time related statistics.\nFurthermore, the 'treestats' package supports summary statistic\ncalculations on Ltables, provides speed-improved coding of\nbranching times, Ltable conversion and includes algorithms to\ncreate intermediately balanced trees. Full description can be\nfound in Janzen (2024) <doi:10.1016/j.ympev.2024.108168>.",
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  "Date/Publication": "2026-05-20 11:50:40 UTC",
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    "list_statistics",
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    "make_unbalanced_tree",
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    "minmax_laplace",
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    "nLTT",
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    "number_of_lineages",
    "phylo_to_l",
    "phylogenetic_diversity",
    "pigot_rho",
    "pitchforks",
    "psv",
    "rebase_ltable",
    "rogers",
    "root_imbalance",
    "rquartet",
    "sackin",
    "sshape",
    "stairs",
    "stairs2",
    "sym_nodes",
    "tot_coph",
    "tot_internal_path",
    "tot_path_length",
    "tree_height",
    "treeness",
    "var_branch_length",
    "var_branch_length_ext",
    "var_branch_length_int",
    "var_leaf_depth",
    "var_pair_dist",
    "wiener"
  ],
  "_help": [
    {
      "page": "treestats-package",
      "title": "Collection of phylogenetic tree statistics",
      "topics": [
        "treestats-package",
        "treestats"
      ]
    },
    {
      "page": "area_per_pair",
      "title": "Area per pair index",
      "topics": [
        "area_per_pair"
      ]
    },
    {
      "page": "average_leaf_depth",
      "title": "Average leaf depth statistic.",
      "topics": [
        "average_leaf_depth"
      ]
    },
    {
      "page": "avg_ladder",
      "title": "Average ladder index",
      "topics": [
        "avg_ladder"
      ]
    },
    {
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      "title": "Average vertex depth metric",
      "topics": [
        "avg_vert_depth"
      ]
    },
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      "title": "B1 metric",
      "topics": [
        "b1"
      ]
    },
    {
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      "title": "B2 metric",
      "topics": [
        "b2"
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    },
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      "title": "Aldous' beta statistic.",
      "topics": [
        "beta_statistic"
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    },
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      "title": "Blum index of (im)balance.",
      "topics": [
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    {
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      "title": "Branching times of a tree",
      "topics": [
        "branching_times"
      ]
    },
    {
      "page": "calc_all_stats",
      "title": "Apply all available tree statistics to a single tree",
      "topics": [
        "calc_all_stats"
      ]
    },
    {
      "page": "calc_brts_stats",
      "title": "Apply all tree statistics related to branching times to a single tree.",
      "topics": [
        "calc_brts_stats"
      ]
    },
    {
      "page": "calc_topology_stats",
      "title": "Calculate all topology based statistics for a single tree",
      "topics": [
        "calc_topology_stats"
      ]
    },
    {
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      "title": "Cherry index",
      "topics": [
        "cherries"
      ]
    },
    {
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      "title": "Colless index of (im)balance.",
      "topics": [
        "colless"
      ]
    },
    {
      "page": "colless_corr",
      "title": "Corrected Colless index of (im)balance.",
      "topics": [
        "colless_corr"
      ]
    },
    {
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      "title": "Quadratic Colless index of (im)balance.",
      "topics": [
        "colless_quad"
      ]
    },
    {
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      "title": "Create a fully balanced tree",
      "topics": [
        "create_fully_balanced_tree"
      ]
    },
    {
      "page": "create_fully_unbalanced_tree",
      "title": "Create an unbalanced tree (caterpillar tree)",
      "topics": [
        "create_fully_unbalanced_tree"
      ]
    },
    {
      "page": "crown_age",
      "title": "Crown age of a tree.",
      "topics": [
        "crown_age"
      ]
    },
    {
      "page": "diameter",
      "title": "Diameter statistic",
      "topics": [
        "diameter"
      ]
    },
    {
      "page": "double_cherries",
      "title": "Double Cherry index",
      "topics": [
        "double_cherries"
      ]
    },
    {
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      "title": "Eigen vector centrality",
      "topics": [
        "eigen_centrality"
      ]
    },
    {
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      "title": "Intensive quadratic entropy statistic J.",
      "topics": [
        "entropy_j"
      ]
    },
    {
      "page": "ew_colless",
      "title": "Equal weights Colless index of (im)balance.",
      "topics": [
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      ]
    },
    {
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      "title": "Four prong index",
      "topics": [
        "four_prong"
      ]
    },
    {
      "page": "gamma_statistic",
      "title": "Gamma statistic",
      "topics": [
        "gamma_statistic"
      ]
    },
    {
      "page": "i_stat",
      "title": "Mean I statistic.",
      "topics": [
        "i_stat"
      ]
    },
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      "title": "ILnumber",
      "topics": [
        "ILnumber"
      ]
    },
    {
      "page": "imbalance_steps",
      "title": "Imbalance steps index",
      "topics": [
        "imbalance_steps"
      ]
    },
    {
      "page": "j_one",
      "title": "J^1 index.",
      "topics": [
        "j_one"
      ]
    },
    {
      "page": "l_to_phylo",
      "title": "Convert an L table to phylo object",
      "topics": [
        "l_to_phylo"
      ]
    },
    {
      "page": "laplacian_spectrum",
      "title": "Laplacian spectrum statistics, from RPANDA",
      "topics": [
        "laplacian_spectrum"
      ]
    },
    {
      "page": "list_statistics",
      "title": "Provides a list of all available statistics in the package",
      "topics": [
        "list_statistics"
      ]
    },
    {
      "page": "ltable_to_newick",
      "title": "Convert an L table to newick string",
      "topics": [
        "ltable_to_newick"
      ]
    },
    {
      "page": "make_unbalanced_tree",
      "title": "Stepwise increase the imbalance of a tree",
      "topics": [
        "make_unbalanced_tree"
      ]
    },
    {
      "page": "max_betweenness",
      "title": "Maximum betweenness centrality.",
      "topics": [
        "max_betweenness"
      ]
    },
    {
      "page": "max_closeness",
      "title": "Maximum closeness",
      "topics": [
        "max_closeness"
      ]
    },
    {
      "page": "max_del_width",
      "title": "Maximum difference of widths of a phylogenetic tree",
      "topics": [
        "max_del_width"
      ]
    },
    {
      "page": "max_depth",
      "title": "Maximum depth metric",
      "topics": [
        "max_depth"
      ]
    },
    {
      "page": "max_ladder",
      "title": "Maximum ladder index",
      "topics": [
        "max_ladder"
      ]
    },
    {
      "page": "max_width",
      "title": "Maximum width of branch depths.",
      "topics": [
        "max_width"
      ]
    },
    {
      "page": "mean_branch_length",
      "title": "Mean branch length of a tree",
      "topics": [
        "mean_branch_length"
      ]
    },
    {
      "page": "mean_branch_length_ext",
      "title": "Mean length of external branch lengths of a tree",
      "topics": [
        "mean_branch_length_ext"
      ]
    },
    {
      "page": "mean_branch_length_int",
      "title": "Mean length of internal branches of a tree",
      "topics": [
        "mean_branch_length_int"
      ]
    },
    {
      "page": "mean_i",
      "title": "Mean I statistic.",
      "topics": [
        "mean_i"
      ]
    },
    {
      "page": "mean_pair_dist",
      "title": "Mean Pairwise distance",
      "topics": [
        "mean_pair_dist"
      ]
    },
    {
      "page": "minmax_adj",
      "title": "Adjancency Matrix properties",
      "topics": [
        "minmax_adj"
      ]
    },
    {
      "page": "minmax_laplace",
      "title": "Laplacian Matrix properties",
      "topics": [
        "minmax_laplace"
      ]
    },
    {
      "page": "mntd",
      "title": "Mean Nearest Taxon distance",
      "topics": [
        "mntd"
      ]
    },
    {
      "page": "mw_over_md",
      "title": "Maximum width of branch depths divided by the maximum depth",
      "topics": [
        "mw_over_md"
      ]
    },
    {
      "page": "nLTT",
      "title": "Normalized LTT statistic",
      "topics": [
        "nLTT"
      ]
    },
    {
      "page": "nLTT_base",
      "title": "Reference nLTT statistic",
      "topics": [
        "nLTT_base"
      ]
    },
    {
      "page": "number_of_lineages",
      "title": "Number of tips of a tree, including extinct tips.",
      "topics": [
        "number_of_lineages"
      ]
    },
    {
      "page": "phylo_to_l",
      "title": "Function to generate an ltable from a phy object.",
      "topics": [
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      ]
    },
    {
      "page": "phylogenetic_diversity",
      "title": "Phylogenetic diversity at time point t",
      "topics": [
        "phylogenetic_diversity"
      ]
    },
    {
      "page": "pigot_rho",
      "title": "Pigot's rho",
      "topics": [
        "pigot_rho"
      ]
    },
    {
      "page": "pitchforks",
      "title": "Number of pitchforks",
      "topics": [
        "pitchforks"
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    },
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