ggtree
This package is for version 3.8 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: 3.8
'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 "3.5") 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")| 01 ggtree Introduction | HTML | R Script |
| 02 Tree Visualization | HTML | R Script |
| 03 Tree Manipulation | HTML | R Script |
| 04 Tree Annotation | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment, Annotation, Clustering, DataImport, MultipleSequenceAlignment, ReproducibleResearch, Software, Visualization |
| Version | 1.14.6 |
| 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), grDevices, grid, magrittr, methods, purrr, rlang, rvcheck (>= 0.1.0), scales, tibble, tidyr, tidytree (>= 0.1.9), treeio(>= 1.3.14), utils |
| System Requirements | |
| URL | https://guangchuangyu.github.io/software/ggtree |
| Bug Reports | https://github.com/GuangchuangYu/ggtree/issues |
See More
| Suggests | colorspace, cowplot, emojifont, ggimage, knitr, prettydoc, rmarkdown, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | LINC, LymphoSeq, philr, singleCellTK, universalmotif |
| Suggests Me | metagenomeFeatures, treeio |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ggtree_1.14.6.tar.gz |
| Windows Binary | ggtree_1.14.6.zip |
| Mac OS X 10.11 (El Capitan) | ggtree_1.14.6.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 3.8 | Source Archive |