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

 

   

a phylogenetic tree viewer for different types of tree annotations

Bioconductor version: Release (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
PDF   Reference Manual
Text   NEWS

Details

biocViews Alignment, Annotation, Clustering, DataImport, MultipleSequenceAlignment, ReproducibleResearch, Software, Visualization
Version 1.4.5
In Bioconductor since BioC 3.1 (R-3.2) (1 year)
License Artistic-2.0
Depends R (>= 3.2.0), ggplot2 (>= 2.0.0)
Imports ape, Biostrings, grDevices, grid, jsonlite, magrittr, methods, stats4, tidyr, utils
LinkingTo
Suggests colorspace, EBImage, knitr, phylobase, phytools, phangorn, 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_1.4.5.tar.gz
Windows Binary ggtree_1.4.5.zip
Mac OS X 10.9 (Mavericks) ggtree_1.4.5.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

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