hg19_blacklist: Human genome hg19 blacklisted regions
In neurogenomics/EpiCompare: Comparison, Benchmarking & QC of Epigenomic Datasets

hg19_blacklist

R Documentation

Human genome hg19 blacklisted regions

Description

Obtained from https://www.encodeproject.org/files/ENCFF001TDO/. The ENCODE blacklist includes regions of the hg19 genome that have anomalous and/or unstructured signals independent of the cell-line or experiment. Removal of ENCODE blacklist is recommended for quality measure.

Usage

data("hg19_blacklist")

Format

An object of class GRanges of length 411.

Source

The code to prepare the .Rda file is:

# blacklisted regions were directly downloaded
# from https://www.encodeproject.org/files/ENCFF001TDO/
hg19_blacklist <- ChIPseeker::readPeakFile(file.path(path), as = "GRanges")
usethis::use_data(hg19_blacklist, overwrite = TRUE)