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>.

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Description file content

Package
treespace
Title
Statistical Exploration of Landscapes of Phylogenetic Trees
Date
2018-05-14
Version
1.1.3
Maintainer
Michelle Kendall
Description
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) .
Depends
R (>= 3.4.0), ape, ade4
Imports
adegenet, adegraphics, adephylo, combinat, compiler, distory, fields, htmlwidgets, MASS, parallel, phangorn, phytools, Rcpp, rgl, RLumShiny, scatterD3, shiny, shinyBS, utils
LinkingTo
Rcpp
Suggests
ggplot2, igraph, knitr, pander, RColorBrewer, reshape2, rmarkdown, testthat
License
MIT + file LICENSE
LazyData
true
Collate
RcppExports.R metrics.R medTree.R treespace.R findGroves.R plotGroves.R plotTreeDiff.R servers.R transmissionTrees.R data.R makeCollapsedTree.R relatedTreeDist.R simulateIndTree.R tipsMRCAdepths.R treeConcordance.R
RoxygenNote
6.0.1
VignetteBuilder
knitr
URL
BugReports
https://github.com/thibautjombart/treespace/issues
NeedsCompilation
yes
Packaged
2018-05-14 15:00:12 UTC; michellekendall
Author
Thibaut Jombart [aut], Michelle Kendall [aut, cre], Jacob Almagro-Garcia [aut], Caroline Colijn [aut]
Repository
CRAN
Date/Publication
2018-05-14 15:48:19 UTC

install.packages('treespace')

1.1.3

6 days ago

https://cran.r-project.org/package=treespace

Michelle Kendall

MIT + file LICENSE

Depends on

R (>= 3.4.0), ape, ade4

Imports

adegenet, adegraphics, adephylo, combinat, compiler, distory, fields, htmlwidgets, MASS, parallel, phangorn, phytools, Rcpp, rgl, RLumShiny, scatterD3, shiny, shinyBS, utils

Suggests

ggplot2, igraph, knitr, pander, RColorBrewer, reshape2, rmarkdown, testthat

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