vidger

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see vidger.

Create rapid visualizations of RNAseq data in R

Bioconductor version: 3.14

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 "4.1") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Software, Visualization

Version 1.14.0

In Bioconductor since BioC 3.7 (R-3.5) (6 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

Suggests BiocStyle, testthat

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Build Report Build Report

Package Archives

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

Source Package vidger_1.14.0.tar.gz

Windows Binary vidger_1.14.0.zip (32- & 64-bit)

macOS 10.13 (High Sierra) vidger_1.14.0.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

Old Source Packages for BioC 3.14 Source Archive