Quartet: Comparison of Phylogenetic Trees Using Quartet and Split Measures

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.

Version: 1.1.0
Depends: R (≥ 3.4.0)
Imports: ape, memoise, Rdpack, Ternary (≥ 1.0), TreeTools
LinkingTo: Rcpp
Suggests: bookdown, knitr, phangorn, Rcpp, rmarkdown, testthat, usethis, vdiffr
Published: 2020-01-28
Author: Martin R. Smith ORCID iD [aut, cre, cph], Andreas Sand [ant], Gerth Stølting Brodal [ant], Rolf Fagerberg [ant], Thomas Mailund [ant], Christian N. S. Pedersen [ant], Jens Johansen [ant], Morten K. Holt [ant]
Maintainer: Martin R. Smith <martin.smith at durham.ac.uk>
BugReports: https://github.com/ms609/Quartet/issues
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
Copyright: Incorporates code modified from tqDist <doi:10.1093/bioinformatics/btu157>.
URL: https://github.com/ms609/Quartet
NeedsCompilation: yes
SystemRequirements: C++11
Language: en-GB
Citation: Quartet citation info
Materials: README NEWS
CRAN checks: Quartet results


Reference manual: Quartet.pdf
Vignettes: Interpreting large quartet distances
Tree distance metrics
Package source: Quartet_1.1.0.tar.gz
Windows binaries: r-devel: Quartet_1.1.0.zip, r-release: Quartet_1.1.0.zip, r-oldrel: Quartet_1.1.0.zip
macOS binaries: r-release: Quartet_1.1.0.tgz, r-oldrel: Quartet_1.1.0.tgz
Old sources: Quartet archive

Reverse dependencies:

Reverse suggests: CongreveLamsdell2016, TreeDist


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