.TreeDistance

<p>Logical specifying whether to perform basic sanity checks to
avoid crashes in C++.</p>

checks

<p>Calculate distance between trees, or lists of trees</p>

internal

Implements measures of tree similarity, including
information-based generalized Robinson-Foulds distances
(Phylogenetic Information Distance, Clustering Information Distance,
Matching Split Information Distance; Smith, 2020)
<doi:10.1093/bioinformatics/btaa614>;
Jaccard-Robinson-Foulds distances (Bocker et al. 2013)
<doi:10.1007/978-3-642-40453-5_13>,
including the Nye et al. (2006) metric <doi:10.1093/bioinformatics/bti720>;
the Matching Split Distance (Bogdanowicz & Giaro 2012)
<doi:10.1109/TCBB.2011.48>;
Maximum Agreement Subtree distances;
the Kendall-Colijn (2016) distance <doi:10.1093/molbev/msw124>, and the
Nearest Neighbour Interchange (NNI) distance, approximated per Li et al.
(1996) <doi:10.1007/3-540-61332-3_168>.
Calculates the median of a set of trees under any distance metric.

Martin R. Smith

TreeDist

Distances Between Phylogenetic Trees

Roy Jonker

Yong Yang

Yi Cao

.TreeDistance function

Calculate distance between trees, or lists of trees — .TreeDistance

Calculate distance between trees, or lists of trees

.TreeDistance: Calculate distance between trees, or lists of trees

Description

Usage

Arguments

See Also