\HeaderA{getIntensityMatrix}{Extract a matrix of microarray intensities from various kinds of objects}{getIntensityMatrix}
\keyword{manip}{getIntensityMatrix}
\begin{Description}\relax
Extract a matrix of microarray intensities from various
kinds of objects. This function is called by the function
\code{\LinkA{vsn}{vsn}}, and is normally not called by the user.
\end{Description}
\begin{Usage}
\begin{verbatim}getIntensityMatrix (intensities, verbose)\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{intensities}] Object of class
\code{\LinkA{ExpressionSet}{ExpressionSet}}
with raw intensity values from a microarray experiment. Alternatively,
this may be a \code{\LinkA{matrix}{matrix}}, a \code{\LinkA{data.frame}{data.frame}} with
all numeric columns or an
\code{\LinkA{marrayRaw}{marrayRaw}} object.
\item[\code{verbose}] Logical. If TRUE, some messages are printed.
\end{ldescription}
\end{Arguments}
\begin{Value}
A numeric matrix.
\end{Value}
\begin{Author}\relax
Wolfgang Huber \url{http://www.ebi.ac.uk/huber}
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{vsn}{vsn}}
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
  ## see the vignette
\end{ExampleCode}
\end{Examples}

