getBlacklistedRegions: Get blacklisted genomic regions

In uzh/ezRun: An R meta-package for the analysis of Next Generation Sequencing Data

Get blacklisted genomic regions

Description

Get the black listed genomic regions for functional genomics analysis.

Usage

getBlacklistedRegions(refBuild = c("hg38", "hg19", "mm10", "mm9", "ce10", "dm3"), 
                      format = c("UCSC", "Ensembl"))

Arguments

refBuild	character(1): one of the genome build of “hg38”, “hg19”, “mm10”, “mm9”, “ce10”, “dm3”.
format	character(1): the returned GRanges with chromosomes in “UCSC” or “Ensembl” format.

Details

These tracks were generated as part of ENCODE, modENCODE projects.

Value

GRanges of blacklisted regions.

Author(s)

Ge Tan

References

https://sites.google.com/site/anshulkundaje/projects/blacklists

Examples

  getBlacklistedRegions("hg38")
  
  getBlacklistedRegions("hg38", format="Ensembl")

uzh/ezRun documentation built on April 24, 2024, 4:01 p.m.