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an R package for visualization of tree and annotation data

Bioconductor version: Release (3.19)

'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] , Lin Li [ctb], Bradley Jones [ctb], Justin Silverman [ctb], Watal M. Iwasaki [ctb], Yonghe Xia [ctb], Ruizhu Huang [ctb]

Maintainer: Guangchuang Yu <guangchuangyu at>

Citation (from within R, enter citation("ggtree")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


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


To view documentation for the version of this package installed in your system, start R and enter:

ggtree HTML R Script
Reference Manual PDF


biocViews Alignment, Annotation, Clustering, DataImport, MultipleSequenceAlignment, Phylogenetics, ReproducibleResearch, Software, Visualization
Version 3.12.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License Artistic-2.0
Depends R (>= 3.5.0)
Imports ape, aplot, dplyr, ggplot2 (> 3.3.6), grid, magrittr, methods, purrr, rlang, ggfun (>= 0.0.9), yulab.utils, tidyr, tidytree (>= 0.4.5), treeio(>= 1.8.0), utils, scales, stats, cli
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Suggests emojifont, ggimage, ggplotify, shadowtext, grDevices, knitr, prettydoc, rmarkdown, testthat, tibble, glue
Linking To
Depends On Me ggtreeDendro, tanggle
Imports Me cardelino, cogeqc, enrichplot, ggmsa, ggtreeExtra, ggtreeSpace, gINTomics, LinTInd, LymphoSeq, miaViz, microbiomeMarker, MicrobiotaProcess, orthogene, philr, scBubbletree, singleCellTK, sitePath, systemPipeTools, treeclimbR, treekoR, DAISIEprep, ddtlcm, dowser, EvoPhylo, genBaRcode, harrietr, numbat, RevGadgets, scistreer, shinyTempSignal, STraTUS, Sysrecon
Suggests Me compcodeR, syntenet, TreeAndLeaf, treeio, TreeSummarizedExperiment, universalmotif, aplot, aplotExtra, CoOL, DAISIE, deeptime, gggenomes, ggimage, idiogramFISH, MetaNet, nosoi, oppr, PCMBase, pctax, RAINBOWR, rhierbaps, rphylopic
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Follow Installation instructions to use this package in your R session.

Source Package ggtree_3.12.0.tar.gz
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macOS Binary (x86_64) ggtree_3.12.0.tgz
macOS Binary (arm64) ggtree_3.12.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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