EnhancedVolcano

DOI: 10.18129/B9.bioc.EnhancedVolcano    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see EnhancedVolcano.

Publication-ready volcano plots with enhanced colouring and labeling

Bioconductor version: 3.13

Volcano plots represent a useful way to visualise the results of differential expression analyses. Here, we present a highly-configurable function that produces publication-ready volcano plots. EnhancedVolcano will attempt to fit as many point labels in the plot window as possible, thus avoiding 'clogging' up the plot with labels that could not otherwise have been read. Other functionality allows the user to identify up to 4 different types of attributes in the same plot space via colour, shape, size, and shade parameter configurations.

Author: Kevin Blighe [aut, cre], Sharmila Rana [aut], Emir Turkes [ctb], Benjamin Ostendorf [ctb], Andrea Grioni [ctb], Myles Lewis [aut]

Maintainer: Kevin Blighe <kevin at clinicalbioinformatics.co.uk>

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("EnhancedVolcano")

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("EnhancedVolcano")

 

HTML	R Script	Publication-ready volcano plots with enhanced colouring and labeling
PDF		Reference Manual
Text		NEWS

Details

biocViews	DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Software, Transcription
Version	1.10.0
In Bioconductor since	BioC 3.8 (R-3.5) (3 years)
License	GPL-3
Depends	ggplot2, ggrepel
Imports	ggalt, ggrastr
LinkingTo
Suggests	RUnit, BiocGenerics, knitr, DESeq2, pasilla, airway, org.Hs.eg.db, gridExtra, magrittr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/kevinblighe/EnhancedVolcano
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	EnhancedVolcano_1.10.0.tar.gz
Windows Binary	EnhancedVolcano_1.10.0.zip
macOS 10.13 (High Sierra)	EnhancedVolcano_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/EnhancedVolcano
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/EnhancedVolcano
Package Short Url	https://bioconductor.org/packages/EnhancedVolcano/
Package Downloads Report	Download Stats