AllelicImbalance
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see AllelicImbalance.
Investigates Allele Specific Expression
Bioconductor version: 3.9
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 "3.6") 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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Genetics, Infrastructure, Sequencing, Software |
| Version | 1.22.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (10.5 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(>= 1.99.3), 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 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AllelicImbalance_1.22.0.tar.gz |
| Windows Binary | AllelicImbalance_1.22.0.zip |
| Mac OS X 10.11 (El Capitan) | AllelicImbalance_1.22.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/AllelicImbalance |
| Source Repository (Developer Access) | git clone [email protected]:packages/AllelicImbalance |
| Bioc Package Browser | https://code.bioconductor.org/browse/AllelicImbalance/ |
| Package Short Url | https://bioconductor.org/packages/AllelicImbalance/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |