This is the released version of ggtree; for the devel version, see
ggtree.
an R package for visualization of tree and annotation data
Bioconductor version: Release (3.22)
'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]
ORCID iD
ORCID: 0000-0002-6485-8781
, Tommy Tsan-Yuk Lam [aut, ths], Shuangbin Xu [aut]
ORCID iD
ORCID: 0000-0003-3513-5362
, Lin Li [ctb], Bradley Jones [ctb], Justin Silverman [ctb], Watal M. Iwasaki [ctb], Yonghe Xia [ctb], Ruizhu Huang [ctb]
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
Citation (from within R, enter citation("ggtree")):
Installation
To install this package, start R (version "4.5") 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")
Details
Version
4.0.1
In Bioconductor since
BioC 3.1 (R-3.2) (10.5 years)
License
Artistic-2.0
Depends
R (>= 4.2.0)
Imports
ape,
aplot,
dplyr,
ggplot2 (>= 4.0.0), grid,
magrittr, methods,
purrr,
rlang,
ggfun (>= 0.1.7),
yulab.utils (>= 0.1.6),
tidyr,
tidytree (>= 0.4.5),
treeio(>= 1.8.0), utils,
scales, stats,
cli,
ggiraph (>= 0.9.1)
System Requirements
See More
Suggests
emojifont,
ggimage,
ggplotify,
shadowtext, grDevices,
knitr,
prettydoc,
rmarkdown,
testthat,
tibble,
glue,
Biostrings
Linking To
Enhances
Imports Me
cardelino,
cellmig,
cogeqc,
crumblr,
DspikeIn,
enrichplot,
ggmsa,
ggtreeExtra,
ggtreeSpace,
iSEEtree,
lefser,
LymphoSeq,
MetaboDynamics,
miaViz,
MicrobiotaProcess,
mitology,
orthogene,
philr,
scBubbletree,
scDotPlot,
singleCellTK,
sitePath,
SVP,
systemPipeTools,
treeclimbR,
treekoR,
BioVizSeq,
DAISIEprep,
ddtlcm,
delimtools,
dowser,
EvoPhylo,
FossilSim,
genBaRcode,
harrietr,
mycolorsTB,
numbat,
Platypus,
RevGadgets,
scistreer,
shinyTempSignal,
STraTUS,
Sysrecon,
TransProR
Suggests Me
compcodeR,
fastreeR,
syntenet,
TreeAndLeaf,
treeio,
TreeSummarizedExperiment,
universalmotif,
aplot,
aplotExtra,
CoOL,
DAISIE,
deeptime,
gggenomes,
ggimage,
ggtangle,
idiogramFISH,
MetaNet,
nosoi,
oppr,
PCMBase,
pctax,
RAINBOWR,
rhierbaps,
rphylopic,
treestructure
Links To Me
Package Archives
Follow Installation instructions to use this package in your R session.
Source Repository
git clone https://git.bioconductor.org/packages/ggtree
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/ggtree