cpdt_dist_file

Functions to calculate rooted triplet distances between pairs of trees.
Input is not checked for sanity.

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 <doi:10.1016/0196-8858(86)90038-2>,
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 <doi:10.1093/bioinformatics/btu157>
for pairs of binary trees; calculating the rooted triplet distance
using the CPDT algorithm of Jansson & Rajaby (2017), A more practical
algorithm for the rooted triplet distance, Journal of Computational Biology
<doi:10.1089/cmb.2016.0185>.

Martin R. Smith

Quartet

Comparison of Phylogenetic Trees Using Quartet and Split
Measures

Jesper Jansson

Ramesh Rajaby

Andreas Sand

Gerth Stølting Brodal

Rolf Fagerberg

Thomas Mailund

Christian N. S. Pedersen

Jens Johansen

Morten K. Holt

cpdt_dist_file function

<dl><dt>file1, file2</dt>
<dd>Paths to files containing a tree or trees in Newick format.</dd></dl>

Arguments

Martin R. Smith, after Ramesh Rajaby

Author

Direct entry points to 'cpdt' functions — cpdt_dist_file

<dl>

<dt>file1, file2</dt>
<dd>Paths to files containing a tree or trees in Newick format.</dd>

</dl>

cpdt_dist_file: Direct entry points to 'cpdt' functions

Description

Usage

Value

Arguments

Author

Details

References