R/hg19.blacklist.v2.R

In plbaldoni/mixNBHMM: Differential Peak Calling via Hidden Markov Model With Mixture of Negative Binomial Distributions

#' Blacklisted genomic regions for functional genomics analysis from hg19
#'
#' Version 2 (06/28/2019) of the blacklisted genomc ranges from the reference genome hg19 obtained. These tracks were obtained from https://github.com/Boyle-Lab/Blacklist/tree/master/lists.
#'
#' @docType data
#'
#' @usage data(hg19.blacklist.v2)
#'
#' @format Ranges
#'
#' @keywords datasets
#'
#' @references
#'
#' Amemiya HM, Kundaje A, Boyle AP. The ENCODE blacklist: identification of problematic regions of the genome. Sci Rep. 2019 Dec; 9(1) 9354 DOI: 10.1038/s41598-019-45839-z
#' ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012 Sep 6;489(7414):57-74. doi: 10.1038/nature11247.
#'
#' @source
#' https://github.com/Boyle-Lab/Blacklist/tree/master/lists
#' https://sites.google.com/site/anshulkundaje/projects/blacklists
#'
#' @rawNamespace import(GenomicRanges, except = shift)
#'
#' @examples
#' data(hg19.blacklist.v2)
#' hg19.blacklist.v2
"hg19.blacklist.v2"