MBASED

DOI: 10.18129/B9.bioc.MBASED    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see MBASED.

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

Bioconductor version: 3.11

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>

Installation

To install this package, start R (version "4.0") and enter:

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

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")

 

PDF	R Script	MBASED
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneExpression, Sequencing, Software, Transcription
Version	1.22.0
In Bioconductor since	BioC 3.0 (R-3.1) (6 years)
License	Artistic-2.0
Depends	RUnit, BiocGenerics, BiocParallel, GenomicRanges, SummarizedExperiment
Imports
LinkingTo
Suggests	BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	MBASED_1.22.0.tar.gz
Windows Binary	MBASED_1.22.0.zip
macOS 10.13 (High Sierra)	MBASED_1.22.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/MBASED
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/MBASED
Package Short Url	https://bioconductor.org/packages/MBASED/
Package Downloads Report	Download Stats