\HeaderA{stamLeaf-class}{Leaf Nodes in Classifier Nets by StAM}{stamLeaf.Rdash.class}
\aliasA{initialize,stamLeaf-method}{stamLeaf-class}{initialize,stamLeaf.Rdash.method}
\aliasA{print,stamLeaf-method}{stamLeaf-class}{print,stamLeaf.Rdash.method}
\aliasA{writeHTML,stamLeaf-method}{stamLeaf-class}{writeHTML,stamLeaf.Rdash.method}
\keyword{classes}{stamLeaf-class}
\begin{Description}\relax
Objects of this class represent leaf nodes in a classifier net as it is used by
structured analysis of microarray data. These are the only nodes which have genes 
annotated.
\end{Description}
\begin{Section}{Objects from the Class}
Objects can be created by calls of the form 
\code{new("stamLeaf", ID, chip, probesidx)}.
\describe{
\item[\code{ID}] is the GO identifier as character string
\item[\code{chip}] the name of the chip for which the classifier net is generated.
\item[\code{probes}] a character vector holding the identifiers of the probesets in 
the order as they occur in the expression matrix
}
\end{Section}
\begin{Section}{Slots}
\describe{
\item[\code{chip}:] Object of class \code{"character"}, the name of the chip for 
which the classifier net is generated.
\item[\code{probes}:] Object of class \code{"numeric"}, for each probeset holds its 
position in the expression metrices to be analyzed 
\item[\code{pamfit}:] Object of class \code{"nsc"}, holds the results of pamr.train 
restricted to the genes annotated to the current leaf node.
\item[\code{delta}:] Object of class \code{"numeric"}, stores the best delty for the 
local pamfit as determined by pamr.cv.
}
See \code{stamNode-class} fot \code{ID}, \code{category}, \code{replacedParents} and 
\code{supNode}.
\end{Section}
\begin{Section}{Extends}
Class \code{"stamNode"}, directly.
\end{Section}
\begin{Section}{Methods}
\describe{
\item[print] \code{signature(x = "stamLeaf")}: print information on the leaf node.
\item[writeHTML] \code{signature(x = "stamLeaf")}: generate HTML information on the 
leaf node.
}
\end{Section}
\begin{Author}\relax
Claudio Lottaz
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{stamNode-class}{stamNode.Rdash.class}}, \code{\LinkA{stamINode-class}{stamINode.Rdash.class}}
\end{SeeAlso}

