R/clinical_datasets.R

In RTCGA/RTCGA.clinical.20160128: Clinical datasets from The Cancer Genome Atlas Project from 2016-01-28

#' 
#' clinical datasets from TCGA project from 2016-01-28 release date
#'
#' Package provides clinical datasets from The Cancer Genome Atlas Project for all cohorts types from \url{http://gdac.broadinstitute.org/}.
#' Data were downloaded using \link{RTCGA-package} and contain snapshots for the release date: \code{2016-01-28} . Visit \pkg{RTCGA} site: \url{http://rtcga.github.io/RTCGA/}.
#' Use cases, examples and information about datasets in \pkg{RTCGA.clinical.20160128}  can be found here: \code{browseVignettes("RTCGA")}. Link to the data format explanation is in the package DESCRIPTION file.
#' 
#' @details \code{browseVignettes("RTCGA")}
#' 
#' @param metadata A logical indicating whether load data into the workspace (default, \code{FALSE}) or to only display the object's metadata (\code{TRUE}). See examples.
#' 
#' @examples
#' 
#' \dontrun{
#'  ACC.clinical.20160128(metadata = TRUE) 
#'  ACC.clinical.20160128(metadata = FALSE) 
#'  ACC.clinical.20160128 
#' }
#' 
#' @import RTCGA
#' @import ExperimentHub
#' @importFrom utils read.csv
#' @importFrom AnnotationHub query
#' @format NULL
#' @source \url{http://gdac.broadinstitute.org/}
#' 
#' @aliases ACC.clinical.20160128,BLCA.clinical.20160128,BRCA.clinical.20160128,CESC.clinical.20160128,CHOL.clinical.20160128,COADREAD.clinical.20160128,DLBC.clinical.20160128,ESCA.clinical.20160128,FPPP.clinical.20160128,GBMLGG.clinical.20160128,HNSC.clinical.20160128,KICH.clinical.20160128,KIPAN.clinical.20160128,KIRC.clinical.20160128,KIRP.clinical.20160128,LAML.clinical.20160128,LIHC.clinical.20160128,LUAD.clinical.20160128,LUSC.clinical.20160128,MESO.clinical.20160128,OV.clinical.20160128,PAAD.clinical.20160128,PCPG.clinical.20160128,PRAD.clinical.20160128,SARC.clinical.20160128,SKCM.clinical.20160128,STAD.clinical.20160128,STES.clinical.20160128,TGCT.clinical.20160128,THCA.clinical.20160128,THYM.clinical.20160128,UCEC.clinical.20160128,UCS.clinical.20160128,UVM.clinical.20160128 
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#'
"ACC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"BLCA.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"BRCA.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"CESC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"CHOL.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"COADREAD.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"DLBC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"ESCA.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"FPPP.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"GBMLGG.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"HNSC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"KICH.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"KIPAN.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"KIRC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"KIRP.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"LAML.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"LIHC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"LUAD.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"LUSC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"MESO.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"OV.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"PAAD.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"PCPG.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"PRAD.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"SARC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"SKCM.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"STAD.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"STES.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"TGCT.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"THCA.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"THYM.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"UCEC.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"UCS.clinical.20160128"
#' @name clinical.20160128 
#' @rdname clinical.20160128 
#' @format NULL 
#'
"UVM.clinical.20160128"