EnhancedVolcano

DOI: 10.18129/B9.bioc.EnhancedVolcano    

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

Publication-ready volcano plots with enhanced colouring and labeling

Bioconductor version: Development (3.11)

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, Sharmila Rana, Myles Lewis

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

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

Installation

To install this package, start R (version "4.0") and enter:

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

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

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 1.5.0
In Bioconductor since BioC 3.8 (R-3.5) (1 year)
License GPL-3
Depends ggplot2, ggrepel
Imports
LinkingTo
Suggests RUnit, BiocGenerics, knitr, DESeq2, pasilla, airway, gridExtra, magrittr
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_1.5.0.tar.gz
Windows Binary EnhancedVolcano_1.5.0.zip
Mac OS X 10.11 (El Capitan) EnhancedVolcano_1.5.0.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/
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