clevRvis

DOI: 10.18129/B9.bioc.clevRvis  

This is the development version of clevRvis; for the stable release version, see clevRvis.

Visualization Techniques for Clonal Evolution

Bioconductor version: Development (3.19)

clevRvis provides a set of visualization techniques for clonal evolution. These include shark plots, dolphin plots and plaice plots. Algorithms for time point interpolation as well as therapy effect estimation are provided. Phylogeny-aware color coding is implemented. A shiny-app for generating plots interactively is additionally provided.

Author: Sarah Sandmann [aut, cre]

Maintainer: Sarah Sandmann <sarah.sandmann at uni-muenster.de>

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

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("clevRvis")

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("clevRvis")

 

HTML R Script ClEvR Viz vignette
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews ShinyApps, Software, Visualization
Version 1.3.0
In Bioconductor since BioC 3.17 (R-4.3) (0.5 years)
License LGPL-3
Depends
Imports shiny, ggraph, igraph, ggiraph, cowplot, htmlwidgets, readxl, dplyr, readr, purrr, tibble, patchwork, R.utils, shinyWidgets, colorspace, shinyhelper, shinycssloaders, ggnewscale, shinydashboard, DT, colourpicker, grDevices, methods, utils, stats, ggplot2, magrittr, tools
LinkingTo
Suggests knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL https://github.com/sandmanns/clevRvis
BugReports https://github.com/sandmanns/clevRvis/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package clevRvis_1.3.0.tar.gz
Windows Binary clevRvis_1.3.0.zip
macOS Binary (x86_64) clevRvis_1.3.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/clevRvis
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/clevRvis
Bioc Package Browser https://code.bioconductor.org/browse/clevRvis/
Package Short Url https://bioconductor.org/packages/clevRvis/
Package Downloads Report Download Stats

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