Package: ggtreeExtra 1.23.1

Shuangbin Xu

ggtreeExtra: An R Package To Add Geometric Layers On Circular Or Other Layout Tree Of "ggtree"

'ggtreeExtra' extends the method for mapping and visualizing associated data on phylogenetic tree using 'ggtree'. These associated data can be presented on the external panels to circular layout, fan layout, or other rectangular layout tree built by 'ggtree' with the grammar of 'ggplot2'.

Authors:Shuangbin Xu [aut, cre], Guangchuang Yu [aut, ctb]

ggtreeExtra_1.23.1.tar.gz
ggtreeExtra_1.23.1.zip(r-4.7)ggtreeExtra_1.23.1.zip(r-4.6)ggtreeExtra_1.23.1.zip(r-4.5)
ggtreeExtra_1.23.1.tgz(r-4.6-any)ggtreeExtra_1.23.1.tgz(r-4.5-any)
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ggtreeExtra_1.23.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
ggtreeExtra/json (API)

# Install 'ggtreeExtra' in R:

install.packages('ggtreeExtra', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/yulab-smu/ggtreeextra/issues

On BioConductor:ggtreeExtra-1.23.0(bioc 3.24)ggtreeExtra-1.22.0(bioc 3.23)

software visualization phylogenetics annotation

10.60 score 98 stars 2 packages 684 scripts 2.2k downloads 2 mentions 18 exports 73 dependencies

Last updated from:b353b67109. Checks:1 ERROR, 9 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	164
linux-devel-x86_64	OK	185
source / vignettes	OK	188
linux-release-x86_64	OK	215
macos-release-arm64	OK	102
macos-oldrel-arm64	OK	114
windows-devel	OK	120
windows-release	OK	106
windows-oldrel	OK	114
wasm-release	OK	127

Exports:%>%fruit_plot geom_fruit geom_fruit_list ggplot_add position_dodgex position_dodgex2 position_identityx position_jitterdodgex position_jitterx position_points_jitterx position_points_sinax position_raincloudx position_stackx PositionJitterdodgex PositionJitterx td_filter td_unnest

Dependencies:ape aplot base64enc bslib cachem cli cpp11 digest dplyr evaluate farver fastmap fontawesome fontBitstreamVera fontLiberation fontquiver fs gdtools generics ggfun ggiraph ggnewscale ggplot2 ggplotify ggtree glue gridGraphics gtable highr htmltools htmlwidgets isoband jquerylib jsonlite knitr labeling lattice lazyeval lifecycle magrittr MASS memoise mime nlme patchwork pillar pkgconfig purrr R6 rappdirs RColorBrewer Rcpp rlang rmarkdown S7 sass scales stringi stringr systemfonts tibble tidyr tidyselect tidytree tinytex treeio utf8 vctrs viridisLite withr xfun yaml yulab.utils

ggtreeExtra

Rendered fromggtreeExtra.Rmdusingknitr::rmarkdown

Last update: 2025-08-11
Started: 2020-07-07

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
plot tree with associated data in another method.	fruit_plot geom_fruit
geom_fruit_list	geom_fruit_list
Dodge overlapping objects side-to-side which can be shifted verically or horizontally.	position_dodgex position_dodgex2
adjust identity position which can be shifted vertically or horizontally.	position_identityx
Simultaneously dodge and jitter, and the whole layer can be shifted vertically or horizontally	position_jitterdodgex
Jitter points to avoid overplotting, and the whole points can be shifted vertically or horizontally	position_jitterx
Randomly jitter the points in a ridgeline plot which can be shifted horizontally	position_points_jitterx
adjust ridgeline plot position which can be shifted vertically or horizontally.	position_points_sinax
Create a cloud of randomly jittered points below a ridgeline plot which can be shifted horizontally	position_raincloudx
Stack overlapping objects which can be shifted vertically or horizontally	position_stackx
PositionDodgex	PositionDodgex PositionDodgex2 PositionIdentityx PositionPointsJitterx PositionPointsSinax PositionRaincloudx PositionStackx
PositionJitterdodgex	PositionJitterdodgex
PositionJitterx	PositionJitterx