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excluderanges

Genomic coordinates of problematic genomic regions

Bioconductor version: Release (3.17)

Genomic coordinates of problematic genomic regions that should be avoided when working with genomic data. GRanges of exclusion regions (formerly known as blacklisted), centromeres, telomeres, known heterochromatin regions, etc. (UCSC 'gap' table data). Primarily for human and mouse genomes, hg19/hg38 and mm9/mm10 genome assemblies.

Author: Mikhail Dozmorov [aut, cre] , Eric Davis [aut], Wancen Mu [aut], Stuart Lee [aut], Tim Triche [aut], Douglas Phanstiel [aut], Michael Love [aut]

Maintainer: Mikhail Dozmorov <mikhail.dozmorov at gmail.com>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

BiocManager::install("excluderanges")

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("excluderanges")
excluderanges HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews AnnotationData, AnnotationHub, FunctionalAnnotation, GenomicSequence
Version 0.99.8
License MIT + file LICENSE
Depends GenomicRanges
Imports
Linking To
Suggests BiocStyle, knitr, RefManageR, rmarkdown, ggridges, httr, readr, pheatmap, rtracklayer, AnnotationHub
System Requirements
Enhances
URL https://github.com/dozmorovlab/excluderanges
Bug Reports https://github.com/dozmorovlab/excluderanges/issues
See More
Depends On Me
Imports Me
Suggests Me nullranges
Links To Me

Package Archives

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

Source Package excluderanges_0.99.8.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Package Short Url https://bioconductor.org/packages/excluderanges/
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