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 (3.20)
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("tweeDEseq")
):
Installation
To install this package, start R (version "4.4") 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 | R Script | |
Reference Manual |
Details
biocViews | DNASeq, DifferentialExpression, ImmunoOncology, RNASeq, Sequencing, Software, StatisticalMethod |
Version | 1.51.0 |
In Bioconductor since | BioC 2.9 (R-2.14) (13 years) |
License | GPL (>= 2) |
Depends | R (>= 4.3.0) |
Imports | Rcpp (>= 1.0.10), MASS, limma, edgeR, parallel, cqn, grDevices, graphics, stats, utils |
System Requirements | |
URL | https://github.com/isglobal-brge/tweeDEseq/ |
Bug Reports | https://github.com/isglobal-brge/tweeDEseq/issues |
See More
Suggests | tweeDEseqCountData, xtable |
Linking To | Rcpp |
Enhances | |
Depends On Me | |
Imports Me | ptmixed |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | tweeDEseq_1.51.0.tar.gz |
Windows Binary | tweeDEseq_1.51.0.zip |
macOS Binary (x86_64) | tweeDEseq_1.51.0.tgz |
macOS Binary (arm64) | tweeDEseq_1.51.0.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 |