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

Details

biocViews ShinyApps, Software, Visualization
Version 1.3.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
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
System Requirements
URL https://github.com/sandmanns/clevRvis
Bug Reports https://github.com/sandmanns/clevRvis/issues
See More
Suggests knitr, rmarkdown, BiocStyle
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 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) clevRvis_1.3.0.tgz
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