\Header{2.Classes}{Classes Defined by this Package}
\keyword{documentation}{2.Classes}
\begin{Description}\relax
This package defines the following data classes.
\describe{
\item[ \code{\Link{RGList}} ] A class used to store raw intensities as they are read in from an image analysis output file,
usually by \code{read.maimages}.

\item[ \code{\Link{MAList}} ] Intensities converted to M-values and A-values, i.e., to contrasts on the log-scale.
Usually created from an \code{RGList} using \code{MA.RG} or \code{normalizeBetweenArrays}.

\item[ \code{\Link{MArrayLM}} ] Store the result of fitting gene-wise linear models to the normalized intensities or log-ratios.
Usually created by \code{lmFit}.
}

Objects of these classes may be \link[limma:subsetting]{subsetted} and multiple data objects may be \link[limma:cbind]{combined}.

All of these classes belong to the virtual class \code{\Link{LargeDataObject}}.
A \code{show} method is defined for \code{LargeDataOject}s which uses the utility function \code{\Link{printHead}}.\end{Description}
\begin{Author}\relax
Gordon Smyth
\end{Author}

