AllQuartets

AllQuartets.numeric

AllQuartets.phylo

Lists all choices of four taxa from a tree.
A more computationally efficient alternative to <code><a href="/link/combn?package=Quartet&version=1.2.6" data-mini-rdoc="Quartet::combn">combn</a></code>.

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

AllQuartets function

<dl><dt>nTips</dt>
<dd>Integer, specifying the number of tips in a tree; or a tree,
whose tips will be counted.</dd></dl>

Arguments

<a href="https://orcid.org/0000-0001-5660-1727">Martin R. Smith</a>
(<a href="/link/martin.smith%40durham.ac.uk?package=Quartet&version=1.2.6" data-mini-rdoc="Quartet::martin.smith@durham.ac.uk">martin.smith@durham.ac.uk</a>)

Author

Lists all choices of four taxa from a tree.
A more computationally efficient alternative to <code><a href='https://rdrr.io/r/utils/combn.html'>combn</a></code>.

List all quartets — AllQuartets

<dl>

<dt>nTips</dt>
<dd>Integer, specifying the number of tips in a tree; or a tree,
whose tips will be counted.</dd>

</dl>

<a href='https://orcid.org/0000-0001-5660-1727'>Martin R. Smith</a>
(<a href='mailto:martin.smith@durham.ac.uk'>martin.smith@durham.ac.uk</a>)

AllQuartets: List all quartets

Description

Usage

Value

Arguments

Author

See Also

Examples