DSS

Dispersion shrinakge for sequencing data.

Bioconductor version: Development (3.0)

DSS is an R library performing differntial analysis for count-based sequencing data. It detectes differentially expressed genes (DEGs) from RNA-seq, and differentially methylated loci or regions (DML/DMRs) from bisulfite sequencing (BS-seq). The core of DSS is a new dispersion shrinkage method for estimating the dispersion parameter from Gamma-Poisson or Beta-Binomial distributions.

Author: Hao Wu <hao.wu at emory.edu>

Maintainer: Hao Wu <hao.wu at emory.edu>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("DSS")

Documentation

PDF R Script Differential expression for RNA-seq data with dispersion shrinkage
PDF   Reference Manual
Text   NEWS

Details

biocViews ChIPSeq, DNAMethylation, DifferentialExpression, RNASeq, Sequencing, Software
Version 2.3.0
In Bioconductor since BioC 2.11 (R-2.15)
License GPL
Depends Biobase, locfdr
Imports methods, bsseq, edgeR
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me compcodeR

Package Downloads

Package Source DSS_2.3.0.tar.gz
Windows Binary DSS_2.3.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) DSS_2.3.0.tgz
Mac OS X 10.9 (Mavericks)
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