ggtreeSpace

This is the released version of ggtreeSpace; for the devel version, see ggtreeSpace.

Visualizing Phylomorphospaces using 'ggtree'

Platform availability badge Ranking badge Support activity badge Years in BioConductor badge Build results badge Last commit badge Dependency count badge

DOI: 10.18129/B9.bioc.ggtreeSpace

Bioconductor version: Release (3.22)

This package is a comprehensive visualization tool specifically designed for exploring phylomorphospace. It not only simplifies the process of generating phylomorphospace, but also enhances it with the capability to add graphic layers to the plot with grammar of graphics to create fully annotated phylomorphospaces. It also provide some utilities to help interpret evolutionary patterns.

Author: Guangchuang Yu [aut, cre, ths, cph] ORCID iD ORCID: 0000-0002-6485-8781 , Li Lin [ctb]

Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>

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

Installation

To install this package, start R (version "4.5") and enter:


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

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("ggtreeSpace")

Introduction to ggtreeSpace HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Annotation, Phylogenetics, Software, Visualization

Version 1.6.0

In Bioconductor since BioC 3.19 (R-4.4) (1.5 years)

License Artistic-2.0

Depends R (>= 4.1.0)

Imports interp, ape, dplyr, GGally, ggplot2, grid, ggtree, phytools, rlang, tibble, tidyr, tidyselect, stats

System Requirements

URL https://github.com/YuLab-SMU/ggtreeSpace

Bug Reports https://github.com/YuLab-SMU/ggtreeSpace/issues

Suggests knitr, prettydoc, rmarkdown, BiocStyle, testthat (>= 3.0.0)

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me

Links To Me

Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package ggtreeSpace_1.6.0.tar.gz

Windows Binary (x86_64) ggtreeSpace_1.6.0.zip

macOS Binary (x86_64) ggtreeSpace_1.6.0.tgz

macOS Binary (arm64) ggtreeSpace_1.6.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/ggtreeSpace

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ggtreeSpace

Bioc Package Browser https://code.bioconductor.org/browse/ggtreeSpace/

Package Short Url https://bioconductor.org/packages/ggtreeSpace/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.22 Source Archive