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tweeDEseq

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

Bioconductor version: 3.24 · Package version: 1.59.0

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.

Installation

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

BiocManager::install("tweeDEseq")

Details

MaintainerDolors Pelegri-Siso <dolors.pelegri@isglobal.org>
AuthorDolors Pelegri-Siso [aut, cre] (ORCID: <https://orcid.org/0000-0002-5993-3003>), Juan R. Gonzalez [aut] (ORCID: <https://orcid.org/0000-0003-3267-2146>), Mikel Esnaola [aut], Robert Castelo [aut]
LicenseGPL (>= 2)
URLhttps://github.com/isglobal-brge/tweeDEseq/
Bug Reportshttps://github.com/isglobal-brge/tweeDEseq/issues
Downloads rank565
Source branchdevel
biocViewsDNASeq, DifferentialExpression, ImmunoOncology, RNASeq, Sequencing, Software, StatisticalMethod

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packagetweeDEseq_1.59.0.tar.gz
Windows binary (x86_64)tweeDEseq_1.59.0.zip
macOS binary (arm64)tweeDEseq_1.59.0.tgz
macOS binary (x86_64)tweeDEseq_1.59.0.tgz
Dependencies

Depends: R (>= 4.3.0)

Imports: Rcpp (>= 1.0.10), MASS, limma, edgeR, parallel, cqn, grDevices, graphics, stats, utils

LinkingTo: Rcpp

Suggests: tweeDEseqCountData, xtable

Reverse dependencies

Imports Me (1): ptmixed