This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Menu

Documentation:

R / CRAN packages and documentation

Support

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

tweeDEseq

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

RNA-seq data analysis using the Poisson-Tweedie family of distributions

Bioconductor version: Development (3.18)

Differential expression analysis of RNA-seq using the Poisson-Tweedie (PT) family of distributions. PT distributions are described by a mean, a dispersion and a shape parameter and include Poisson and NB distributions, among others, as particular cases. An important feature of this family is that, while the Negative Binomial (NB) distribution only allows a quadratic mean-variance relationship, the PT distributions generalizes this relationship to any orde.

Author: Dolors Pelegri-Siso [aut, cre] , Juan R. Gonzalez [aut] , Mikel Esnaola [aut], Robert Castelo [aut]

Maintainer: Dolors Pelegri-Siso <dolors.pelegri at isglobal.org>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

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

BiocManager::install("tweeDEseq")

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("tweeDEseq")
tweeDEseq: analysis of RNA-seq data using the Poisson-Tweedie family of distributions PDF R Script
Reference Manual PDF

Details

biocViews DNASeq, DifferentialExpression, ImmunoOncology, RNASeq, Sequencing, Software, StatisticalMethod
Version 1.47.4
In Bioconductor since BioC 2.9 (R-2.14) (12 years)
License GPL (>= 2)
Depends R (>= 4.3.0)
Imports Rcpp (>= 1.0.10), MASS, limma, edgeR, parallel, cqn, grDevices, graphics, stats, utils
Linking To Rcpp
Suggests tweeDEseqCountData, xtable
System Requirements
Enhances
URL https://github.com/isglobal-brge/tweeDEseq/
Bug Reports https://github.com/isglobal-brge/tweeDEseq/issues
See More
Depends On Me
Imports Me ptmixed
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package tweeDEseq_1.47.4.tar.gz
Windows Binary tweeDEseq_1.47.4.zip (64-bit only)
macOS Binary (x86_64) tweeDEseq_1.47.4.tgz
macOS Binary (arm64) tweeDEseq_1.47.4.tgz
Source Repository git clone https://git.bioconductor.org/packages/tweeDEseq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/tweeDEseq
Bioc Package Browser https://code.bioconductor.org/browse/tweeDEseq/
Package Short Url https://bioconductor.org/packages/tweeDEseq/
Package Downloads Report Download Stats