R/dataset_documentation.R

In MalteThodberg/ABCdata: Datasets for the Advanced Bioinformatics Course (ABC) 2015

#' Fission yeast mutant time series experiment
#'
#' RNA-Seq data originally from bioconductor. For more information, see reference from URL.
#'
#' @format List with 3 elements:
#' \describe{
#'   \item{Expression}{Integer matrix: Features by samples matrix with integers representing raw counts}
#'   \item{Design}{Dataframe: Study design}
#'   \item{Annotation}{Dataframe: Additional info about features}
#'   The three objects are already in the same order, but can be matched using row/column names.
#' }
#' @source \url{http://www.bioconductor.org/packages/release/data/experiment/html/fission.html}
"YeastTimeSeries"

#' Parathyroid tumor treatment experiment
#'
#' RNA-Seq data originally from bioconductor. For more information, see reference from URL.
#'
#' @format List with 3 elements:
#' \describe{
#'   \item{Expression}{Integer matrix: Features by samples matrix with integers representing raw counts}
#'   \item{Design}{Dataframe: Study design}
#'   \item{Annotation}{Dataframe: Additional info about features}
#'   The three objects are already in the same order, but can be matched using row/column names.
#' }
#' @source \url{http://www.bioconductor.org/packages/release/data/experiment/html/parathyroidSE.html}
"ParathyroidTumors"

#' Zebrafish gallein experiment
#'
#' RNA-Seq data originally from bioconductor. For more information, see reference from URL.
#'
#' @format List with 3 elements:
#' \describe{
#'   \item{Expression}{Integer matrix: Features by samples matrix with integers representing raw counts}
#'   \item{Design}{Dataframe: Study design}
#'   \item{Annotation}{Dataframe: Additional info about features}
#'   The three objects are already in the same order, but can be matched using row/column names.
#' }
#' @source \url{http://www.bioconductor.org/packages/release/data/experiment/html/zebrafishRNASeq.html}
"Zebrafish"

#' Rat neuron experiment
#'
#' RNA-Seq data originally from RECount. For more information, see reference from URL.
#'
#' @format List with 3 elements:
#' \describe{
#'   \item{Expression}{Integer matrix: Features by samples matrix with integers representing raw counts}
#'   \item{Design}{Dataframe: Study design}
#'   \item{Annotation}{Dataframe: Additional info about features}
#'   The three objects are already in the same order, but can be matched using row/column names.
#' }
#' @source \url{http://www.ncbi.nlm.nih.gov/pubmed?term=20452967}
"RatNeurons"

#' Human Tissue Experiment (Wang et al.)
#'
#' RNA-Seq data originally from RECount. For more information, see reference from URL.
#'
#' @format List with 3 elements:
#' \describe{
#'   \item{Expression}{Integer matrix: Features by samples matrix with integers representing raw counts}
#'   \item{Design}{Dataframe: Study design}
#'   \item{Annotation}{Dataframe: Additional info about features}
#'   The three objects are already in the same order, but can be matched using row/column names.
#' }
#' @source \url{http://www.ncbi.nlm.nih.gov/pubmed?term=18978772}
"WangTissues"

#' Human Tissue Experiment (Asmann et al.)
#'
#' RNA-Seq data originally from RECount. For more information, see reference from URL.
#'
#' @format List with 3 elements:
#' \describe{
#'   \item{Expression}{Integer matrix: Features by samples matrix with integers representing raw counts}
#'   \item{Design}{Dataframe: Study design}
#'   \item{Annotation}{Dataframe: Additional info about features}
#'   The three objects are already in the same order, but can be matched using row/column names.
#' }
#' @source \url{http://www.ncbi.nlm.nih.gov/pubmed/22496456}
"AsmannTissues"