\HeaderA{smoothSnp}{A simple nonparametric smoother for genotype and copy number}{smoothSnp}
\keyword{methods}{smoothSnp}
\begin{Description}\relax
A loess smoother for finding regions of reduced copy number and loss
of heterozygosity.
\end{Description}
\begin{Usage}
\begin{verbatim}
smoothSnp(object, ...)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{object}] Object derived from \code{AnnotatedSnpSet}
\item[\code{...}] For additional arguments see details.
\end{ldescription}
\end{Arguments}
\begin{Details}\relax
Additional arguments include the chromosomes (character vector) and
samples (numerical vector) to smooth.  Options for smoothing are set
by specifying the span and the method.  The loess method is the
default and the only method currently available.
\end{Details}
\begin{Value}
An object of the same class, e.g., \code{AnnotatedSnpSet}, but
assayData elements copyNumber and calls are replaced by the smoothed
values.
\end{Value}
\begin{Note}\relax
\end{Note}
\begin{Author}\relax
Robert Scharpf
\end{Author}
\begin{References}\relax
\end{References}
\begin{SeeAlso}\relax
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
\end{ExampleCode}
\end{Examples}

