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AllelicImbalance

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

Investigates Allele Specific Expression


Bioconductor version: Development (3.19)

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")):

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews Genetics, Infrastructure, Sequencing, Software
Version 1.41.0
In Bioconductor since BioC 2.13 (R-3.0) (10.5 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
See More
Suggests testthat, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene, SNPlocs.Hsapiens.dbSNP144.GRCh37, BiocStyle, knitr, rmarkdown
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Package Archives

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

Source Package AllelicImbalance_1.41.0.tar.gz
Windows Binary AllelicImbalance_1.41.0.zip
macOS Binary (x86_64) AllelicImbalance_1.41.0.tgz
macOS Binary (arm64) AllelicImbalance_1.41.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/AllelicImbalance
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/AllelicImbalance
Bioc Package Browser https://code.bioconductor.org/browse/AllelicImbalance/
Package Short Url https://bioconductor.org/packages/AllelicImbalance/
Package Downloads Report Download Stats