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: | 1.2.7 |
| Depends: | R (≥ 3.5.0), TreeTools (≥ 1.4.0) |
| Imports: | ape, PlotTools, Rdpack (≥ 0.7), Ternary (≥ 1.0), viridisLite |
| LinkingTo: | Rcpp |
| Suggests: | bookdown, knitr, phangorn, Rcpp, rmarkdown, testthat, usethis, vdiffr |
| Published: | 2024-10-31 |
| DOI: | 10.32614/CRAN.package.Quartet |
| Author: | Martin R. Smith 
[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://ms609.github.io/Quartet/, https://github.com/ms609/Quartet/ |
| NeedsCompilation: | yes |
| Language: | en-GB |
| Citation: | Quartet citation info |
| Materials: | README NEWS |
| In views: | Phylogenetics |
| CRAN checks: | Quartet results |
Documentation:
| Reference manual: | Quartet.pdf |
| Vignettes: |
About the quartet distance (source, R code) Getting started with Quartet (source, R code) |
Downloads:
| Package source: | Quartet_1.2.7.tar.gz |
| Windows binaries: | r-devel: Quartet_1.2.7.zip, r-release: Quartet_1.2.7.zip, r-oldrel: Quartet_1.2.7.zip |
| macOS binaries: | r-devel (arm64): Quartet_1.2.7.tgz, r-release (arm64): Quartet_1.2.7.tgz, r-oldrel (arm64): Quartet_1.2.7.tgz, r-devel (x86_64): Quartet_1.2.7.tgz, r-release (x86_64): Quartet_1.2.7.tgz, r-oldrel (x86_64): Quartet_1.2.7.tgz |
| Old sources: | Quartet archive |
Reverse dependencies:
| Reverse suggests: | CongreveLamsdell2016, TreeDist, TreeSearch |
Linking:
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