excluderanges

DOI: 10.18129/B9.bioc.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>

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")

 

HTML	R Script	excluderanges
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	AnnotationData, AnnotationHub, FunctionalAnnotation, GenomicSequence
Version	0.99.8
License	MIT + file LICENSE
Depends	GenomicRanges
Imports
LinkingTo
Suggests	BiocStyle, knitr, RefManageR, rmarkdown, ggridges, httr, readr, pheatmap, rtracklayer, AnnotationHub
SystemRequirements
Enhances
URL	https://github.com/dozmorovlab/excluderanges
BugReports	https://github.com/dozmorovlab/excluderanges/issues
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/
Package Downloads Report	Download Stats