stageR

This is the development version of stageR; for the stable release version, see stageR.

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, 3.6

stageR: stage-wise analysis of high throughput gene expression data in R

Bioconductor version: Development (3.24)

The stageR package allows automated stage-wise analysis of high-throughput gene expression data. The method is published in Genome Biology at https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1277-0

Author: Koen Van den Berge and Lieven Clement

Maintainer: Koen Van den Berge <koen.vdberge at gmail.com>

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

Koen Van den Berge and Lieven Clement. stageR: stageR: stage-wise analysis of high throughput gene expression data in R. doi:10.18129/B9.bioc.stageR, R package version 1.33.0, https://bioconductor.org/packages/stageR.

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")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("stageR")

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("stageR")

stageR: stage-wise analysis of high-throughput gene expression data in R	HTML	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Software, StatisticalMethod
Version	1.33.0
In Bioconductor since	BioC 3.6 (R-3.4) (9 years)
License	GNU General Public License version 3
Depends	R (>= 3.4), SummarizedExperiment
Imports	methods, stats
System Requirements
URL

Suggests	knitr, rmarkdown, BiocStyle, methods, Biobase, edgeR, limma, DEXSeq, testthat
Linking To
Enhances
Depends On Me	rnaseqDTU
Imports Me
Suggests Me	muscat, satuRn
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	stageR_1.33.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/stageR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/stageR
Package Short Url	https://bioconductor.org/packages/stageR/
Package Downloads Report	Download Stats