excluderanges

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see excluderanges.

Genomic coordinates of problematic genomic regions

Bioconductor version: 3.15

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 "4.2") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	AnnotationData, AnnotationHub, FunctionalAnnotation, GenomicSequence
Version	0.99.6
License	MIT + file LICENSE
Depends
Imports
System Requirements
URL	https://github.com/mdozmorov/excluderanges
Bug Reports	https://github.com/mdozmorov/excluderanges/issues

Suggests	BiocStyle, knitr, RefManageR, rmarkdown, rCGH, sessioninfo, AnnotationHub
Linking To
Enhances
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_0.99.6.tar.gz
Windows Binary
macOS Binary (x86_64)
Package Short Url	https://bioconductor.org/packages/excluderanges/
Package Downloads Report	Download Stats