R/IDOLOptimizedCpGs450klegacy.compTable.R

In immunomethylomics/FlowSorted.Blood.EPIC: Illumina EPIC data on immunomagnetic sorted peripheral adult blood cells

#' IDOL Optimized CpGs matrix for adult blood DNA methylation deconvolution EPIC
#'
#' @description
#'     This object is a matrix of dimensions 350 x 6 consisting of the average
#'     DNA methylation values fo the probes included in the IDOL optimized
#'     CpGs per each of the six cell types available to use in the older 450K
#'     platform.  These CpGs are used as the backbone for deconvolution and
#'     were selected because their methylation signature differs across the six
#'     normal leukocyte subtypes.
#'
#' @format An object of class "matrix" of dimensions 450 x 6.
#'
#'         The format is:
#'         num [1:350, 1:6] 0.904  0.122  0.633  0.841  0.135 ...
#' @references LA Salas et al. (2018). \emph{An optimized library for
#' reference-based deconvolution of whole-blood biospecimens assayed using the
#' Illumina HumanMethylationEPIC BeadArray}. Genome Biology 19, 64. doi:
#' \href{https://dx.doi.org/10.1186/s13059-018-1448-7}{10.1186/s13059-018-1448-7}
#' @references DC Koestler et al. (2016). \emph{Improving cell mixture
#' deconvolution by identifying optimal DNA methylation libraries (IDOL)}.
#' BMC bioinformatics. 17, 120. doi:
#' \href{https://dx.doi.org/10.1186/s13059-018-1448-7}{10.1186/s13059-018-1448-7}.
#'
#' @examples
#'
#' # data("IDOLOptimizedCpGs450klegacy.compTable")
#' # head(IDOLOptimizedCpGs450klegacy.compTable)
#' # See ?estimateCellCounts2 for deconvolution examples (advanced user)
"IDOLOptimizedCpGs450klegacy.compTable"