sRAP

This package is for version 3.10 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see sRAP.

Simplified RNA-Seq Analysis Pipeline


Bioconductor version: 3.10

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>

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

Installation

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


if (!require("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")
sRAP Vignette PDF R Script
Reference Manual PDF

Details

biocViews DifferentialExpression, GO, GeneExpression, GeneSetEnrichment, Microarray, Preprocessing, QualityControl, RNAseq, Software, Statistics, Visualization
Version 1.26.0
In Bioconductor since BioC 2.13 (R-3.0) (10.5 years)
License GPL-3
Depends WriteXLS
Imports gplots, pls, ROCR, qvalue
System Requirements
URL
See More
Suggests
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 sRAP_1.26.0.tar.gz
Windows Binary sRAP_1.26.0.zip
Mac OS X 10.11 (El Capitan) sRAP_1.26.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/sRAP
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/sRAP
Bioc Package Browser https://code.bioconductor.org/browse/sRAP/
Package Short Url https://bioconductor.org/packages/sRAP/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.10 Source Archive