To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("sRAP")

In most cases, you don't need to download the package archive at all.

sRAP

Simplified RNA-Seq Analysis Pipeline

Bioconductor version: Release (3.1)

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 and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("sRAP")

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 1.8.0
In Bioconductor since BioC 2.13 (R-3.0)
License GPL-3
Depends WriteXLS
Imports gplots, pls, ROCR, qvalue
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source sRAP_1.8.0.tar.gz
Windows Binary sRAP_1.8.0.zip
Mac OS X 10.6 (Snow Leopard) sRAP_1.8.0.tgz
Mac OS X 10.9 (Mavericks) sRAP_1.8.0.tgz
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