hg38_blacklist: Human genome hg38 blacklisted regions

In serachoi1230/EpiCompare: Comparison, Benchmarking & QC of Epigenomic Datasets

Human genome hg38 blacklisted regions

Description

Obtained from https://www.encodeproject.org/files/ENCFF356LFX/. The ENCODE blacklist includes regions of the hg38 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("hg38_blacklist")

Format

An object of class GRanges of length 910.

Source

The code to prepare the .Rda file is:

## blacklisted regions were directly downloaded
## from https://www.encodeproject.org/files/ENCFF356LFX/
hg38_blacklist <- ChIPseeker::readPeakFile(file.path(path), as = "GRanges")
usethis::use_data(hg38_blacklist, overwrite = TRUE)

serachoi1230/EpiCompare documentation built on Jan. 30, 2024, 11:37 a.m.