tot_coph

The total cophenetic index is the sum of the depth of the last
common ancestor of all pairs of leaves.

Collection of phylogenetic tree statistics,
collected throughout the literature. All functions have been
written to maximize computation speed. The package includes
umbrella functions to calculate all statistics, all balance
associated statistics, or all branching time related statistics.
Furthermore, the 'treestats' package supports summary statistic
calculations on Ltables, provides speed-improved coding of
branching times, Ltable conversion and includes algorithms to
create intermediately balanced trees. Full description can be
found in Janzen (2024) <doi:10.1016/j.ympev.2024.108168>.

Thijs Janzen

treestats

Phylogenetic Tree Statistics

tot_coph function

<dl><dt>phy</dt>
<dd>phylo object or ltable</dd>
<dt>normalization</dt>
<dd>"none" or "yule", when "yule" is chosen, the statistic
is divided by the Yule expectation</dd></dl>

Arguments

Total cophenetic index. — tot_coph

<dl>

<dt>phy</dt>
<dd>phylo object or ltable</dd>


<dt>normalization</dt>
<dd>"none" or "yule", when "yule" is chosen, the statistic
is divided by the Yule expectation</dd>

</dl>

tot_coph: Total cophenetic index.

Description

Usage

Value

Arguments

References