.NormalizeStatus

Handles vectors and matrices of two or three dimensions.

internal

Calculates the number of four-taxon subtrees consistent with a pair
of cladograms, calculating the symmetric quartet distance of Bandelt & Dress
(1986), Reconstructing the shape of a tree from observed dissimilarity data,
Advances in Applied Mathematics, 7, 309-343 <doi:10.1016/0196-8858(86)90038-2>,
and using the tqDist algorithm of Sand et al. (2014), tqDist: a library for
computing the quartet and triplet distances between binary or general trees,
Bioinformatics, 30, 2079–2080 <doi:10.1093/bioinformatics/btu157>
for pairs of binary trees.

Martin R. Smith

Quartet

Comparison of Phylogenetic Trees Using Quartet and Split
Measures

Andreas Sand

Gerth Stølting Brodal

Rolf Fagerberg

Thomas Mailund

Christian N. S. Pedersen

Jens Johansen

Morten K. Holt

.NormalizeStatus function

<dl><dt>elementStatus</dt>
<dd>Two-dimensional integer array, with rows corresponding to
counts of matching quartets or partitions for each tree, and columns named
according to the output of <code>QuartetStatus()</code> or
<code>SplitStatus()</code>.</dd>
<dt>numerator, denominator</dt>
<dd>Character vector listing elements to sum in
numerator / denominator.</dd>
<dt>takeFromOne</dt>
<dd>Logical specifying whether to deduct value from one.</dd></dl>

Arguments

Normalize element statuses to generate metric — .NormalizeStatus

<dl>

<dt>elementStatus</dt>
<dd>Two-dimensional integer array, with rows corresponding to
counts of matching quartets or partitions for each tree, and columns named
according to the output of <code>QuartetStatus()</code> or
<code>SplitStatus()</code>.</dd>


<dt>numerator, denominator</dt>
<dd>Character vector listing elements to sum in
numerator / denominator.</dd>


<dt>takeFromOne</dt>
<dd>Logical specifying whether to deduct value from one.</dd>

</dl>

Normalize element statuses to generate metric

.NormalizeStatus: Normalize element statuses to generate metric

Description

Usage

Arguments