DSS
This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see DSS.
Dispersion shrinkage for sequencing data
Bioconductor version: 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("DSS")):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DSS")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DSS")| Differential expression for RNA-seq data with dispersion shrinkage | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ChIPSeq, DNAMethylation, DifferentialExpression, DifferentialMethylation, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software |
| Version | 2.30.1 |
| In Bioconductor since | BioC 2.11 (R-2.15) (11.5 years) |
| License | GPL |
| Depends | R (>= 3.3), Biobase, bsseq, splines, methods |
| Imports | stats, graphics, DelayedArray |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | DMRcate |
| Imports Me | kissDE |
| Suggests Me | PROPER |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | DSS_2.30.1.tar.gz |
| Windows Binary | DSS_2.30.1.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | DSS_2.30.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/DSS |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DSS |
| Bioc Package Browser | https://code.bioconductor.org/browse/DSS/ |
| Package Short Url | https://bioconductor.org/packages/DSS/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.8 | Source Archive |