vidger

DOI: 10.18129/B9.bioc.vidger  

Create rapid visualizations of RNAseq data in R

Bioconductor version: Release (3.16)

The aim of vidger is to rapidly generate information-rich visualizations for the interpretation of differential gene expression results from three widely-used tools: Cuffdiff, DESeq2, and edgeR.

Author: Brandon Monier [aut, cre], Adam McDermaid [aut], Jing Zhao [aut], Qin Ma [aut, fnd]

Maintainer: Brandon Monier <brandon.monier at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("vidger")

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("vidger")

 

HTML	R Script	Visualizing RNA-seq data with ViDGER
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Software, Visualization
Version	1.18.0
In Bioconductor since	BioC 3.7 (R-3.5) (5 years)
License	GPL-3 | file LICENSE
Depends	R (>= 3.5)
Imports	Biobase, DESeq2, edgeR, GGally, ggplot2, ggrepel, knitr, RColorBrewer, rmarkdown, scales, stats, SummarizedExperiment, tidyr, utils
LinkingTo
Suggests	BiocStyle, testthat
SystemRequirements
Enhances
URL	https://github.com/btmonier/vidger https://bioconductor.org/packages/release/bioc/html/vidger.html
BugReports	https://github.com/btmonier/vidger/issues
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	vidger_1.18.0.tar.gz
Windows Binary	vidger_1.18.0.zip
macOS Binary (x86_64)	vidger_1.18.0.tgz
macOS Binary (arm64)	vidger_1.18.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/vidger
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/vidger
Bioc Package Browser	https://code.bioconductor.org/browse/vidger/
Package Short Url	https://bioconductor.org/packages/vidger/
Package Downloads Report	Download Stats