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MBASED

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

Package containing functions for ASE analysis using Meta-analysis Based Allele-Specific Expression Detection

Bioconductor version: Development (3.18)

The package implements MBASED algorithm for detecting allele-specific gene expression from RNA count data, where allele counts at individual loci (SNVs) are integrated into a gene-specific measure of ASE, and utilizes simulations to appropriately assess the statistical significance of observed ASE.

Author: Oleg Mayba, Houston Gilbert

Maintainer: Oleg Mayba <mayba.oleg at gene.com>

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

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("MBASED")

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("MBASED")
MBASED PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneExpression, Sequencing, Software, Transcription
Version 1.35.0
In Bioconductor since BioC 3.0 (R-3.1) (9 years)
License Artistic-2.0
Depends RUnit, BiocGenerics, BiocParallel, GenomicRanges, SummarizedExperiment
Imports
Linking To
Suggests BiocStyle
System Requirements
Enhances
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Depends On Me
Imports Me
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Build Report  

Package Archives

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

Source Package MBASED_1.35.0.tar.gz
Windows Binary MBASED_1.35.0.zip
macOS Binary (x86_64) MBASED_1.35.0.tgz
macOS Binary (arm64) MBASED_1.35.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/MBASED
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MBASED
Bioc Package Browser https://code.bioconductor.org/browse/MBASED/
Package Short Url https://bioconductor.org/packages/MBASED/
Package Downloads Report Download Stats