baySeq

This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see baySeq.

Empirical Bayesian analysis of patterns of differential expression in count data

Bioconductor version: 3.19

This package identifies differential expression in high-throughput 'count' data, such as that derived from next-generation sequencing machines, calculating estimated posterior likelihoods of differential expression (or more complex hypotheses) via empirical Bayesian methods.

Author: Thomas J. Hardcastle [aut], Samuel Granjeaud [cre]

Maintainer: Samuel Granjeaud <samuel.granjeaud at inserm.fr>

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

Installation

To install this package, start R (version "4.4") and enter:


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

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("baySeq")

Advanced baySeq analyses PDF R Script

baySeq PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Bayesian, Coverage, DifferentialExpression, MultipleComparison, SAGE, Sequencing, Software

Version 2.38.0

In Bioconductor since BioC 2.5 (R-2.10) (15 years)

License GPL-3

Depends R (>= 2.3.0), methods

Imports edgeR, GenomicRanges, abind, parallel, graphics, stats, utils

System Requirements

URL https://github.com/samgg/baySeq

Bug Reports https://github.com/samgg/baySeq/issues

Suggests BiocStyle, BiocGenerics

Linking To

Enhances

Depends On Me clusterSeq, segmentSeq

Imports Me riboSeqR

Suggests Me

Links To Me

Build Report Build Report

Package Archives

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

Source Package baySeq_2.38.0.tar.gz

Windows Binary (x86_64) baySeq_2.38.0.zip

macOS Binary (x86_64) baySeq_2.38.0.tgz

macOS Binary (arm64) baySeq_2.38.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/baySeq

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/baySeq

Bioc Package Browser https://code.bioconductor.org/browse/baySeq/

Package Short Url https://bioconductor.org/packages/baySeq/

Package Downloads Report Download Stats