vidger

Create rapid visualizations of RNAseq data in R


Bioconductor version: Release (3.19)

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>

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

Installation

To install this package, start R (version "4.4") 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")
Visualizing RNA-seq data with ViDGER HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Software, Visualization
Version 1.24.0
In Bioconductor since BioC 3.7 (R-3.5) (6.5 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
System Requirements
URL https://github.com/btmonier/vidger https://bioconductor.org/packages/release/bioc/html/vidger.html
Bug Reports https://github.com/btmonier/vidger/issues
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Package Archives

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

Source Package vidger_1.24.0.tar.gz
Windows Binary (x86_64) vidger_1.24.0.zip
macOS Binary (x86_64) vidger_1.24.0.tgz
macOS Binary (arm64) vidger_1.24.0.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