sRAP

DOI: 10.18129/B9.bioc.sRAP    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see sRAP.

Simplified RNA-Seq Analysis Pipeline

Bioconductor version: 3.9

This package provides a pipeline for gene expression analysis (primarily for RNA-Seq data). The normalization function is specific for RNA-Seq analysis, but all other functions (Quality Control Figures, Differential Expression and Visualization, and Functional Enrichment via BD-Func) will work with any type of gene expression data.

Author: Charles Warden

Maintainer: Charles Warden <cwarden45 at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("sRAP")

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("sRAP")

 

PDF	R Script	sRAP Vignette
PDF		Reference Manual

Details

biocViews	DifferentialExpression, GO, GeneExpression, GeneSetEnrichment, Microarray, Preprocessing, QualityControl, RNAseq, Software, Statistics, Visualization
Version	1.24.0
In Bioconductor since	BioC 2.13 (R-3.0) (6 years)
License	GPL-3
Depends	WriteXLS
Imports	gplots, pls, ROCR, qvalue
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Package Archives

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

Source Package	sRAP_1.24.0.tar.gz
Windows Binary	sRAP_1.24.0.zip
Mac OS X 10.11 (El Capitan)	sRAP_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/sRAP
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/sRAP
Package Short Url	https://bioconductor.org/packages/sRAP/
Package Downloads Report	Download Stats