BADER

Bayesian Analysis of Differential Expression in RNA Sequencing Data

Bioconductor version: Release (3.19)

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 "4.4") and enter:


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

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, ImmunoOncology, RNASeq, SAGE, Sequencing, Software
Version	1.42.0
In Bioconductor since	BioC 2.13 (R-3.0) (11 years)
License	GPL-2
Depends
Imports
System Requirements
URL

Suggests	pasilla(>= 0.2.10)
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Build Report	Build Report

Package Archives

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

Source Package	BADER_1.42.0.tar.gz
Windows Binary (x86_64)	BADER_1.42.0.zip (64-bit only)
macOS Binary (x86_64)	BADER_1.42.0.tgz
macOS Binary (arm64)	BADER_1.42.0.tgz
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