R/genomeData-data.R

In derfinder: Annotation-agnostic differential expression analysis of RNA-seq data at base-pair resolution via the DER Finder approach

#' Genome samples processed data
#'
#' 10kb region from chr21 processed for 31 RNA-seq samples described in
#' [genomeInfo]. The TopHat BAM files are included in the package and this
#' is the output of [loadCoverage] applied to it. For more information
#' check the example of [loadCoverage].
#'
#' @references
#' 1. Pickrell JK, Marioni JC, Pai AA, Degner JF, Engelhardt BE, Nkadori E,
#' Veyrieras J-B, Stephens M, Gilad Y, Pritchard JK. Understanding mechanisms
#' underlying human gene expression variation with RNA sequencing. Nature 2010
#' Apr.
#'
#' 2. Montgomery SB, Sammeth M, Gutierrez-Arcelus M, Lach RP, Ingle C, Nisbett
#' J, Guigo R, Dermitzakis ET. Transcriptome genetics using second generation
#' sequencing in a Caucasian population. Nature 2010 Mar.
#'
#' @name genomeData
#' @docType data
#' @format  A list with two components.
#' \describe{
#' \item{coverage }{  is a DataFrame object where each column represents a
#' sample.}
#' \item{position }{ is a logical Rle with the positions of the chromosome that
#' passed a cutoff of 0.}
#' }
#' @keywords datasets
#' @seealso [loadCoverage], [genomeInfo]
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