clevRvis

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

Visualization Techniques for Clonal Evolution

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DOI: 10.18129/B9.bioc.clevRvis

Bioconductor version: Release (3.22)

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] ORCID iD ORCID: 0000-0002-5011-0641

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

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

Installation

To install this package, start R (version "4.5") 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 1.10.0

In Bioconductor since BioC 3.17 (R-4.3) (2.5 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

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Package Archives

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

Source Package clevRvis_1.10.0.tar.gz

Windows Binary (x86_64) clevRvis_1.9.0.zip

macOS Binary (x86_64) clevRvis_1.10.0.tgz

macOS Binary (arm64) clevRvis_1.10.0.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/

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