To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ggtree")
In most cases, you don't need to download the package archive at all.
ggtree
|
This package is for version 3.3 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: 3.3
ggtree extends the ggplot2 plotting system which implemented the grammar of graphics. ggtree is designed for visualizing phylogenetic tree and different types of associated annotation data.
Author: Guangchuang Yu and Tommy Tsan-Yuk Lam
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
Citation (from within R,
enter citation("ggtree")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ggtree")
Documentation
| HTML | R Script | 00 ggtree introduction |
| HTML | R Script | 01 Tree Data Import |
| HTML | R Script | 02 Tree Visualization |
| HTML | R Script | 03 Tree Manipulation |
| HTML | R Script | 04 Tree Annotation |
| HTML | R Script | 05 Advance Tree Annotation |
| HTML | R Script | 06 ggtree utilities |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Alignment, Annotation, Clustering, DataImport, MultipleSequenceAlignment, ReproducibleResearch, Software, Visualization |
| Version | 1.4.20 |
| In Bioconductor since | BioC 3.1 (R-3.2) (1.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.2.0), ggplot2 (>= 2.0.0) |
| Imports | ape, grDevices, grid, jsonlite, magrittr, methods, stats4, tidyr, utils |
| LinkingTo | |
| Suggests | Biostrings, colorspace, EBImage, emojifont, knitr, rmarkdown, scales, testthat |
| SystemRequirements | |
| Enhances | |
| URL | http://guangchuangyu.github.io/ggtree |
| BugReports | https://github.com/GuangchuangYu/ggtree/issues |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | ggtree_1.4.20.tar.gz |
| Windows Binary | ggtree_1.4.20.zip |
| Mac OS X 10.9 (Mavericks) | ggtree_1.4.20.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/ggtree/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/ggtree/ |
| Package Downloads Report | Download Stats |
Documentation »
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