DSS

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

Dispersion shrinkage for sequencing data

Bioconductor version: Development (3.23)

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>, Hao Feng<hxf155 at case.edu>

Maintainer: Hao Wu <hao.wu at emory.edu>, Hao Feng <hxf155 at case.edu>

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

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("DSS")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DNAMethylation, DifferentialExpression, DifferentialMethylation, GeneExpression, RNASeq, Sequencing, Software
Version	2.57.0
In Bioconductor since	BioC 2.11 (R-2.15) (13 years)
License	GPL
Depends	R (>= 3.5.0), methods, Biobase, BiocParallel, bsseq, parallel
Imports	utils, graphics, stats, splines
System Requirements
URL

Suggests	BiocStyle, knitr, rmarkdown, edgeR
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
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
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	https://bioconductor.org/packages/DSS/
Package Downloads Report	Download Stats