ggtree

DOI:10.18129/B9.bioc.ggtree

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, seeggtree.

an R package for visualization of tree and annotation data

Bioconductor version: 3.14

'ggtree' extends the 'ggplot2' plotting system which implemented the grammar of graphics. 'ggtree' is designed for visualization and annotation of phylogenetic trees and other tree-like structures with their annotation data.

Author: Guangchuang Yu [aut, cre, cph], Tommy Tsan-Yuk Lam [aut, ths], Shuangbin Xu [aut], Yonghe Xia [ctb], Justin Silverman [ctb], Bradley Jones [ctb], Watal M. Iwasaki [ctb], Ruizhu Huang [ctb]

Maintainer: Guangchuang Yu

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("ggtree")

For older versions of R, please refer to the appropriateBioconductor release.

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("ggtree")

HTML	R Script	ggtree
PDF		Reference Manual
Text		NEWS

Details

biocViews	Alignment,Annotation,Clustering,DataImport,MultipleSequenceAlignment,Phylogenetics,ReproducibleResearch,Software,Visualization
Version	3.2.1
In Bioconductor since	BioC 3.1 (R-3.2) (7 years)
License	Artistic-2.0
Depends	R (>= 3.5.0)
Imports	ape,aplot(>= 0.0.4),dplyr,ggplot2(>= 3.0.0), grid,magrittr, methods,purrr,rlang,ggfun,yulab.utils,tidyr,tidytree(>= 0.2.6),treeio(>= 1.8.0), utils,scales
LinkingTo
Suggests	emojifont,ggimage,ggplotify, grDevices,knitr,prettydoc,rmarkdown, stats,testthat,tibble
SystemRequirements
Enhances
URL	https://yulab-smu.top/treedata-book/(book)http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628(paper)
BugReports	https://github.com/YuLab-SMU/ggtree/issues
Depends On Me	tanggle
Imports Me	enrichplot,ggtreeExtra,LymphoSeq,miaViz,microbiomeMarker,MicrobiotaProcess,philr,singleCellTK,sitePath,systemPipeTools,treekoR
Suggests Me	ggmsa,TreeAndLeaf,treeio,TreeSummarizedExperiment,universalmotif
Links To Me
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	ggtree_3.2.1.tar.gz
Windows Binary	ggtree_3.2.1.zip
macOS 10.13 (High Sierra)	ggtree_3.2.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ggtree
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ggtree
Package Short Url	//www.andersvercelli.com/packages/ggtree/
Package Downloads Report	Download Stats