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>.

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: 2023-09-07
DOI: 10.32614/CRAN.package.treespace
Author: Thibaut Jombart ORCID iD [aut], Michelle Kendall ORCID iD [aut, cre], Jacob Almagro-Garcia ORCID iD [aut], Caroline Colijn ORCID iD [aut]
Maintainer: Michelle Kendall <michelle.kendall at>
License: MIT + file LICENSE
NeedsCompilation: yes
Citation: treespace citation info
Materials: README NEWS
In views: Phylogenetics
CRAN checks: treespace results


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


Package source: treespace_1.1.4.3.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): treespace_1.1.4.3.tgz, r-oldrel (arm64): treespace_1.1.4.3.tgz, r-release (x86_64): treespace_1.1.4.3.tgz, r-oldrel (x86_64): treespace_1.1.4.3.tgz
Old sources: treespace archive


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