\HeaderA{racExSet-class}{Class "racExSet" -- container for genotype data
in 'rare allele count' form and expression data.  Approaching
obsolescence, see smlSet for more efficient representation.}{racExSet.Rdash.class}
\aliasA{initialize,racExSet-method}{racExSet-class}{initialize,racExSet.Rdash.method}
\keyword{classes}{racExSet-class}
\begin{Description}\relax
Class "racExSet" -- container for genotype data
in 'rare allele count' form and expression data.  Approaching
obsolescence, see smlSet for more efficient representation.
\end{Description}
\begin{Section}{Objects from the Class}
Objects can be created by calls of the form \code{new("racExSet", phenoData, experimentData, annotation, exprs, racs, rarebase, SNPalleles)}.
\end{Section}
\begin{Section}{Slots}
\describe{
\item[\code{racAssays}:] Object of class \code{"AssayData"} S x N
matrix holding rare allele counts 
\item[\code{rarebase}:] Object of class \code{"character"} nucleotide
code for rare allele of each SNP in the population assayed 
\item[\code{SNPalleles}:] Object of class \code{"character"} 
nucleotide code for polymorphism 
\item[\code{assayData}:] Object of class \code{"AssayData"} expression
data container 
\item[\code{phenoData}:] Object of class \code{"AnnotatedDataFrame"} 
sample data container 
\item[\code{featureData}:] Object of class \code{"AnnotatedDataFrame"} expression feature metadata container 
\item[\code{experimentData}:] Object of class \code{"MIAME"} experiment
level metadata 
\item[\code{annotation}:] Object of class \code{"character"} Bioconductor
annotation package name 
\item[\code{.\_\_classVersion\_\_}:] Object of class \code{"Versions"} class
version metadata 
}
\end{Section}
\begin{Section}{Extends}
Class \code{"\LinkA{eSet}{eSet}"}, directly.
Class \code{"\LinkA{VersionedBiobase}{VersionedBiobase}"}, by class "eSet", distance 2.
Class \code{"\LinkA{Versioned}{Versioned}"}, by class "eSet", distance 3.
\end{Section}
\begin{Section}{Methods}
\describe{
\item[initialize] \code{signature(.Object = "racExSet")}: ... 
}
\end{Section}
\begin{Author}\relax
VJ Carey <stvjc@channing.harvard.edu>
\end{Author}
\begin{SeeAlso}\relax
murine examples in GGtools continue to use this structure
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
showClass("racExSet")
\end{ExampleCode}
\end{Examples}

