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BADER

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

Bayesian Analysis of Differential Expression in RNA Sequencing Data

Bioconductor version: Development (3.18)

For RNA sequencing count data, BADER fits a Bayesian hierarchical model. The algorithm returns the posterior probability of differential expression for each gene between two groups A and B. The joint posterior distribution of the variables in the model can be returned in the form of posterior samples, which can be used for further down-stream analyses such as gene set enrichment.

Author: Andreas Neudecker, Matthias Katzfuss

Maintainer: Andreas Neudecker <a.neudecker at arcor.de>

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

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("BADER")

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("BADER")
Analysing RNA-Seq data with the "BADER" package PDF R Script
Reference Manual PDF

Details

biocViews DifferentialExpression, ImmunoOncology, RNASeq, SAGE, Sequencing, Software
Version 1.39.0
In Bioconductor since BioC 2.13 (R-3.0) (10 years)
License GPL-2
Depends
Imports
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Suggests pasilla(>= 0.2.10)
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Package Archives

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

Source Package BADER_1.39.0.tar.gz
Windows Binary BADER_1.39.0.zip
macOS Binary (x86_64) BADER_1.39.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/BADER
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BADER
Bioc Package Browser https://code.bioconductor.org/browse/BADER/
Package Short Url https://bioconductor.org/packages/BADER/
Package Downloads Report Download Stats