clevRvis

Visualization Techniques for Clonal Evolution

Bioconductor version: Release (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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ShinyApps, Software, Visualization
Version	1.4.0
In Bioconductor since	BioC 3.17 (R-4.3) (1.5 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
System Requirements
URL	https://github.com/sandmanns/clevRvis
Bug Reports	https://github.com/sandmanns/clevRvis/issues

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_1.4.0.tar.gz
Windows Binary (x86_64)	clevRvis_1.4.0.zip (64-bit only)
macOS Binary (x86_64)	clevRvis_1.4.0.tgz
macOS Binary (arm64)	clevRvis_1.4.0.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