\HeaderA{annotatedDataset}{Virtual superset for 'exprSet'.}{annotatedDataset}
\aliasA{\$,annotatedDataset-method}{annotatedDataset}{.Rdol.,annotatedDataset.Rdash.method}
\aliasA{\$<-,annotatedDataset-method}{annotatedDataset}{.Rdol.<.Rdash.,annotatedDataset.Rdash.method}
\aliasA{annotatedDataset-class}{annotatedDataset}{annotatedDataset.Rdash.class}
\aliasA{class:annotatedDataset}{annotatedDataset}{class:annotatedDataset}
\aliasA{pData,annotatedDataset-method}{annotatedDataset}{pData,annotatedDataset.Rdash.method}
\aliasA{pData<-,annotatedDataset,ANY-method}{annotatedDataset}{pData<.Rdash.,annotatedDataset,ANY.Rdash.method}
\aliasA{phenoData,annotatedDataset-method}{annotatedDataset}{phenoData,annotatedDataset.Rdash.method}
\aliasA{reporterInfo,annotatedDataset-method}{annotatedDataset}{reporterInfo,annotatedDataset.Rdash.method}
\aliasA{reporterInfo<-,annotatedDataset,data.frame-method}{annotatedDataset}{reporterInfo<.Rdash.,annotatedDataset,data.frame.Rdash.method}
\aliasA{varLabels,annotatedDataset-method}{annotatedDataset}{varLabels,annotatedDataset.Rdash.method}
\aliasA{[[,annotatedDataset-method}{annotatedDataset}{[[,annotatedDataset.Rdash.method}
\aliasA{[[<-,annotatedDataset-method}{annotatedDataset}{[[<.Rdash.,annotatedDataset.Rdash.method}
\keyword{classes}{annotatedDataset}
\begin{Description}\relax
This virtual class is used to derive the \code{exprSet} class. It defines the \code{phenoData} specific methods
\end{Description}
\begin{Section}{Objects from the Class}
A virtual Class: No objects may be created from it.
\end{Section}
\begin{Section}{Slots}
\describe{
\item[\code{phenoData}:] This is an instance of class \code{phenoData} containing the patient (or case) level data. The columns of the pData slot of this entity represent variables and the rows represent patients or cases.  
\item[\code{reporterInfo}] class:\code{data.frameOrNULL}
}
\end{Section}
\begin{Section}{Methods}
\describe{
\item[\code{\$(annotatedDataset)} and \code{\$(annotatedDataset, value)<-}] An old-style method. This operator extracts the named component of the \code{pData} slot in \code{phenoData}.
\item[\code{[[(index)} and \code{[[(index, value)<-}:] Not documented
\item[\code{phenoData(annotatedDataset)} and \code{phenoData(annotatedDataset, value)<-}] Methods to access/update \code{phenoData} slot
\item[\code{reporterInfo(annotatedDataset)} and \code{reporterInfo(annotatedDataset, value)<-}] Methods to access/update \code{reporterInfo} slot
\item[\code{pData(annotatedDataset)} and \code{pData(exprSet, value)<-}] Not documented
\item[\code{varLabels(annotatedDataset)}] Not documented
}
\end{Section}
\begin{Section}{Warning}
This is a virtual class and no objects of this class should be
created from it.  Instead, create exprSet or eSet
\end{Section}
\begin{Author}\relax
Alan Katz
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{exprSet}{exprSet}}, \code{\LinkA{phenoData}{phenoData}}
\end{SeeAlso}

