vidger
Create rapid visualizations of RNAseq data in R
Bioconductor version: Release (3.20)
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 | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Software, Visualization |
| Version | 1.26.0 |
| 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 |
See More
| Suggests | BiocStyle, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | vidger_1.26.0.tar.gz |
| Windows Binary (x86_64) | vidger_1.26.0.zip (64-bit only) |
| macOS Binary (x86_64) | vidger_1.26.0.tgz |
| macOS Binary (arm64) | vidger_1.26.0.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 |