AllelicImbalance

This is the released version of AllelicImbalance; for the devel version, see AllelicImbalance.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13

Investigates Allele Specific Expression

Bioconductor version: Release (3.23)

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>

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

Jesper R Gadin, Lasse Folkersen. AllelicImbalance: Investigates Allele Specific Expression. doi:10.18129/B9.bioc.AllelicImbalance, R package version 1.50.0, https://bioconductor.org/packages/AllelicImbalance.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("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")

AllelicImbalance Vignette	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Genetics, Infrastructure, Sequencing, Software
Version	1.50.0
In Bioconductor since	BioC 2.13 (R-3.0) (13 years)
License	GPL-3
Depends	R (>= 4.0.0), 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 (>= 1.99.3), GenomicFeatures (>= 1.31.3), Gviz, lattice, latticeExtra, gridExtra, seqinr, GenomeInfoDb, nlme
System Requirements
URL	https://github.com/pappewaio/AllelicImbalance
Bug Reports	https://github.com/pappewaio/AllelicImbalance/issues

Suggests	testthat, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene, SNPlocs.Hsapiens.dbSNP144.GRCh37, BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
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Build Report	Build Report, r-universe

Package Archives

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

Source Package	AllelicImbalance_1.50.0.tar.gz
Windows Binary (x86_64)	AllelicImbalance_1.50.0.zip
macOS Binary (big-sur-x86_64)	AllelicImbalance_1.50.0.tgz
macOS Binary (sonoma-arm64)	AllelicImbalance_1.50.0.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	https://bioconductor.org/packages/AllelicImbalance/
Package Downloads Report	Download Stats