R/data_kirpRNAseq_df.R

In gabrielodom/Bioc2019pathwayPCA: A workshop on the pathwayPCA package

#' Kidney Papillary Cell Carcinoma (KIRP) RNAseq Data
#'
#' @description IlluminaHiSeq data from The Cancer Genome Atlas' KIRP cohort.
#'   Xena's description: "The gene expression profile was measured
#'   experimentally using the Illumina HiSeq 2000 RNA Sequencing platform by
#'   the University of North Carolina TCGA genome characterization center.
#'   Level 3 data was downloaded from TCGA data coordination center. This
#'   dataset shows the gene-level transcription estimates, as in \eqn{log2(x+1)}
#'   transformed RSEM normalized counts. Genes are mapped onto the human genome
#'   coordinates using UCSC Xena HUGO probeMap."
#'
#' @format A data frame containing 20530 RNAseq log-transformed counts for 323
#'   samples. The first column is the TCGA sample IDs (\code{Sample}).
#'
#' @source RNAseq KIRP data from the TCGA hub as hosteb by Xena:
#'   \url{https://xenabrowser.net/hub/}
#'
#'   Cleaning script: \code{inst/scripts/download_KIRP.R}
"kirpRNAseq_df"