treespace: Statistical Exploration of Landscapes of Phylogenetic Trees

Tools for the exploration of distributions of phylogenetic trees. This package includes a 'shiny' interface which can be started from R using treespaceServer(). For further details see Jombart et al. (2017) <doi:10.1111/1755-0998.12676>.

Version:	1.1.4.4
Depends:	R (≥ 3.4.0), ape, ade4
Imports:	adegenet, adegraphics, combinat, compiler, distory, fields, htmlwidgets, MASS, methods, parallel, phangorn, phytools, Rcpp, rgl, RLumShiny, scatterD3, shiny, shinyBS, utils
LinkingTo:	Rcpp
Suggests:	ggplot2, igraph, knitr, pander, RColorBrewer, reshape2, rmarkdown, sf, testthat
Published:	2025-08-27
DOI:	10.32614/CRAN.package.treespace
Author:	Thibaut Jombart [aut], Michelle Kendall [aut, cre], Jacob Almagro-Garcia [aut], Caroline Colijn [aut]
Maintainer:	Michelle Kendall <michelle.kendall at ndm.ox.ac.uk>
BugReports:	https://github.com/thibautjombart/treespace/issues
License:	MIT + file LICENSE
URL:	https://cran.r-project.org/package=treespace, https://github.com/thibautjombart/treespace
NeedsCompilation:	yes
Citation:	treespace citation info
Materials:	README, NEWS
In views:	Phylogenetics
CRAN checks:	treespace results

Documentation:

Reference manual:	treespace.html , treespace.pdf
Vignettes:	treespace worked example: Dengue trees (source) treespace worked example: Transmission trees (source) Exploration of landscapes of phylogenetic trees (source) Comparing trees by tip label categories (source)

Downloads:

Package source:	treespace_1.1.4.4.tar.gz
Windows binaries:	r-devel: treespace_1.1.4.4.zip, r-release: treespace_1.1.4.4.zip, r-oldrel: treespace_1.1.4.4.zip
macOS binaries:	r-release (arm64): treespace_1.1.4.4.tgz, r-oldrel (arm64): treespace_1.1.4.4.tgz, r-release (x86_64): treespace_1.1.4.4.tgz, r-oldrel (x86_64): treespace_1.1.4.4.tgz
Old sources:	treespace archive

Reverse dependencies:

Reverse imports:

mixtree

Linking:

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