Package: phylogram 2.1.0.9000

Shaun Wilkinson

phylogram: Dendrograms for Evolutionary Analysis

Contains functions for developing phylogenetic trees as deeply-nested lists ("dendrogram" objects). Enables bi-directional conversion between dendrogram and "phylo" objects (see Paradis et al (2004) <doi:10.1093/bioinformatics/btg412>), and features several tools for command-line tree manipulation and import/export via Newick parenthetic text.

Authors:Shaun Wilkinson [aut, cre], Simon Davy [aut]

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phylogram.pdf |phylogram.html✨
phylogram/json (API)

# Install 'phylogram' in R:

install.packages('phylogram', repos = c('https://ropensci.r-universe.dev', 'https://cloud.r-project.org'))

Reviews:rOpenSci Software Review #212

Bug tracker:https://github.com/ropensci/phylogram/issues

Pkgdown site:https://docs.ropensci.org

On CRAN:

peer-reviewed

8.54 score 11 stars 8 packages 262 scripts 599 downloads 44 mentions 11 exports 5 dependencies

Last updated 6 years ago from:9b7ce7672a (on master). Checks:11 OK. Indexed: yes.

Target	Result	Total time
linux-devel-x86_64	OK	116
pkgdown docs	OK	160
source / vignettes	OK	180
linux-release-x86_64	OK	121
macos-release-arm64	OK	74
macos-oldrel-arm64	OK	101
windows-devel	OK	78
windows-release	OK	72
windows-oldrel	OK	74
wasm-release	OK	109
wasm-oldrel	OK	113

Exports:as.cladogram as.dendrogram as.dendrogram.phylo as.phylo as.phylo.dendrogram ladder prune read.dendrogram remidpoint reposition write.dendrogram

Dependencies:ape digest lattice nlme Rcpp

phylogram: an R package for phylogenetic analysis with dendrograms

Shaun P. Wilkinson ^1,2^ and Simon K. Davy ^1^

Rendered fromphylogram-vignette.Rmdusingknitr::rmarkdownon Jul 28 2025.

Last update: 2018-06-26
Started: 2017-01-18

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Apply unweighted branch lengths.	as.cladogram
Convert a "phylo" object to a dendrogram.	as.dendrogram.phylo
Convert a dendrogram to a "phylo" object.	as.phylo.dendrogram
Reorder tree branches in ladderized pattern.	ladder
Dendrograms for evolutionary analysis.	phylogram-package phylogram
Remove tree nodes by regular expression pattern matching.	prune
Read a dendrogram from parenthetic text.	read.dendrogram
Set dendrogram attributes for a nested list.	remidpoint
Reset dendrogram height attributes.	reposition
Write a dendrogram object to parenthetic text.	write.dendrogram