DSS

DOI: 10.18129/B9.bioc.DSS    

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

Dispersion shrinkage for sequencing data

Bioconductor version: Development (3.8)

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>

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

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("DSS", version = "devel")

Documentation

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

browseVignettes("DSS")

 

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

Details

biocViews ChIPSeq, DNAMethylation, DifferentialExpression, DifferentialMethylation, GeneExpression, RNASeq, Sequencing, Software
Version 2.29.0
In Bioconductor since BioC 2.11 (R-2.15) (6 years)
License GPL
Depends R (>= 3.3), Biobase, bsseq, splines, methods
Imports stats, graphics, DelayedArray
LinkingTo
Suggests BiocStyle
SystemRequirements
Enhances
URL
Depends On Me DMRcate
Imports Me kissDE
Suggests Me PROPER
Links To Me
Build Report  

Package Archives

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

Source Package DSS_2.29.0.tar.gz
Windows Binary DSS_2.29.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) DSS_2.29.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/DSS
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DSS
Package Short Url http://bioconductor.org/packages/DSS/
Package Downloads Report Download Stats

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