To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SVAPLSseq")

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

SVAPLSseq

DOI: 10.18129/B9.bioc.SVAPLSseq    

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

SVAPLSseq-An R package to estimate the hidden factors of unwanted variability and adjust for them to enable a more powerful and accurate differential expression analysis based on RNAseq data

Bioconductor version: Development (3.7)

The package contains functions that are intended for extracting the signatures of latent variation in RNAseq data and using them to perform an improved differential expression analysis for a set of features (genes, transcripts) between two specified biological groups.

Author: Sutirtha Chakraborty

Maintainer: Sutirtha Chakraborty <sutirtha_sutir at yahoo.co.in>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SVAPLSseq")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("SVAPLSseq")

 

PDF R Script SVAPLSseq tutorial
PDF   Reference Manual
Text   NEWS

Details

biocViews BatchEffect, GeneExpression, Normalization, RNASeq, Software
Version 1.5.0
In Bioconductor since BioC 3.4 (R-3.3) (1 year)
License GPL-3
Depends R (>= 3.4)
Imports methods, stats, SummarizedExperiment, edgeR, ggplot2, limma, lmtest, parallel, pls
LinkingTo
Suggests BiocStyle
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.

Source Package SVAPLSseq_1.5.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) SVAPLSseq_1.5.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SVAPLSseq
Package Short Url http://bioconductor.org/packages/SVAPLSseq/
Package Downloads Report Download Stats

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