AllelicImbalance

DOI: 10.18129/B9.bioc.AllelicImbalance    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see AllelicImbalance.

Investigates Allele Specific Expression

Bioconductor version: 3.8

Provides a framework for allelic specific expression investigation using RNA-seq data.

Author: Jesper R Gadin, Lasse Folkersen

Maintainer: Jesper R Gadin <j.r.gadin at gmail.com>

Installation

To install this package, start R (version "3.5") and enter:

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

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("AllelicImbalance")

 

PDF	R Script	AllelicImbalance Vignette
PDF		Reference Manual
Text		NEWS

Details

biocViews	Genetics, Infrastructure, Sequencing, Software
Version	1.20.0
In Bioconductor since	BioC 2.13 (R-3.0) (5.5 years)
License	GPL-3
Depends	R (>= 3.2.0), grid, GenomicRanges(>= 1.31.8), SummarizedExperiment(>= 0.2.0), GenomicAlignments(>= 1.15.6)
Imports	methods, BiocGenerics, AnnotationDbi, BSgenome(>= 1.47.3), VariantAnnotation(>= 1.25.11), Biostrings(>= 2.47.6), S4Vectors(>= 0.17.25), IRanges(>= 2.13.12), Rsamtools(>= 1.31.2), GenomicFeatures(>= 1.31.3), Gviz, lattice, latticeExtra, gridExtra, seqinr, GenomeInfoDb, nlme
LinkingTo
Suggests	testthat, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene, SNPlocs.Hsapiens.dbSNP144.GRCh37, BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/pappewaio/AllelicImbalance
BugReports	https://github.com/pappewaio/AllelicImbalance/issues
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	AllelicImbalance_1.20.0.tar.gz
Windows Binary	AllelicImbalance_1.20.0.zip
Mac OS X 10.11 (El Capitan)	AllelicImbalance_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/AllelicImbalance
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/AllelicImbalance
Package Short Url	http://bioconductor.org/packages/AllelicImbalance/
Package Downloads Report	Download Stats