ggtree
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ggtree.
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
Bioconductor version: 3.9
'ggtree' extends the 'ggplot2' plotting system which implemented the grammar of graphics. 'ggtree' is designed for visualization and annotation of phylogenetic trees with their covariates and other associated data.
Author: Guangchuang Yu [aut, cre, cph] , Tommy Tsan-Yuk Lam [aut, ths], Justin Silverman [ctb], Bradley Jones [ctb], Watal M. Iwasaki [ctb]
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
citation("ggtree")
):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ggtree")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ggtree")
ggtree | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Alignment, Annotation, Clustering, DataImport, MultipleSequenceAlignment, ReproducibleResearch, Software, Visualization |
Version | 1.16.6 |
In Bioconductor since | BioC 3.1 (R-3.2) (9 years) |
License | Artistic-2.0 |
Depends | R (>= 3.4.0) |
Imports | ape, dplyr, ggplot2 (>= 3.0.0), grid, magrittr, methods, purrr, rlang, rvcheck (>= 0.1.0), tidyr, tidytree (>= 0.2.4), treeio(>= 1.7.3), utils |
System Requirements | |
URL | https://yulab-smu.github.io/treedata-book/ |
Bug Reports | https://github.com/GuangchuangYu/ggtree/issues |
See More
Suggests | emojifont, ggimage, ggplotify, grDevices, knitr, prettydoc, rmarkdown, scales, testthat, tibble |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | LINC, LymphoSeq, philr, singleCellTK, universalmotif |
Suggests Me | metagenomeFeatures, treeio, TreeSummarizedExperiment |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | ggtree_1.16.6.tar.gz |
Windows Binary | ggtree_1.16.6.zip |
Mac OS X 10.11 (El Capitan) | ggtree_1.16.6.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/ggtree |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ggtree |
Bioc Package Browser | https://code.bioconductor.org/browse/ggtree/ |
Package Short Url | https://bioconductor.org/packages/ggtree/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.9 | Source Archive |