area_per_pair

The area per pair index calculates the sum of the number of
edges on the path between all two leaves. Instead, the area per pair index
(APP) can also be derived from the Sackin (S) and total cophenetic index
(TC):
\( APP = \frac{2}{n}\cdot S - \frac{4}{n(n-1)}\cdot TC\)
\(APP = 2/n * S - 4/(n(n-1)) * TC\)

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

area_per_pair function

<dl><dt>phy</dt>
<dd>phylo object or ltable</dd>
<dt>normalization</dt>
<dd>"none" or "yule", in which case the acquired result
is divided by the expectation for the Yule model.</dd></dl>

Arguments

Area per pair index — area_per_pair

<dl>

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


<dt>normalization</dt>
<dd>"none" or "yule", in which case the acquired result
is divided by the expectation for the Yule model.</dd>

</dl>

area_per_pair: Area per pair index

Description

Usage

Value

Arguments

References