vidger

This is the released version of vidger; for the devel version, see vidger.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7

Create rapid visualizations of RNAseq data in R

Bioconductor version: Release (3.23)

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")):

Brandon Monier, Adam McDermaid, Jing Zhao, Qin Ma. vidger: Create rapid visualizations of RNAseq data in R. doi:10.18129/B9.bioc.vidger, R package version 1.32.0, https://bioconductor.org/packages/vidger.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") 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	1.32.0
In Bioconductor since	BioC 3.7 (R-3.5) (8.5 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

Suggests	BiocStyle, testthat
Linking To
Enhances
Depends On Me
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Build Report	Build Report, r-universe

Package Archives

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

Source Package	vidger_1.32.0.tar.gz
Windows Binary (x86_64)	vidger_1.32.0.zip
macOS Binary (big-sur-x86_64)	vidger_1.32.0.tgz
macOS Binary (sonoma-arm64)	vidger_1.32.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/vidger
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/vidger
Package Short Url	https://bioconductor.org/packages/vidger/
Package Downloads Report	Download Stats