\inputencoding{latin1}
\HeaderA{profileCGH}{Objects of Class profileCGH and profileChr}{profileCGH}
\aliasA{profileChr}{profileCGH}{profileChr}
\keyword{classes}{profileCGH}
\begin{Description}\relax
Description of the objects \code{profileCGH} and \code{profileChr}. The
last object corresponds to data of only one chromosome.
\end{Description}
\begin{Details}\relax
\code{LogRatio, Chromosome} and \code{PosOrder} are compulsory.
\end{Details}
\begin{Value}
Objects \code{profileCGH} and \code{profileChr} are composed of a list with the first element
\code{profileValues} which is a \code{data.frame} with the following columns
names:
\begin{ldescription}
\item[\code{LogRatio}] Test over Reference log-ratio.
\item[\code{PosOrder}] The rank position of each clone on the genome.
\item[\code{PosBase}] The base position of each clone on the genome.
\item[\code{Chromosome}] Chromosome name.
\item[\code{Clone}] The name of the corresponding clone.
\item[\code{...}] Other elements can be added.
\end{ldescription}
\end{Value}
\begin{Note}\relax
People interested in tools dealing with array CGH analysis can
visit our web-page \url{http://bioinfo.curie.fr}.
\end{Note}
\begin{Author}\relax
Philippe Hupé, \email{glad@curie.fr}.
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{glad}{glad}}, \code{\LinkA{as.profileCGH}{as.profileCGH}}.
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
  
data(snijders)
gm13330$Clone <- gm13330$BAC
profileCGH <- as.profileCGH(gm13330)
class(profileCGH) <- "profileCGH"

profileChr <- as.profileCGH(gm13330[which(gm13330$Chromosome==1),])
class(profileChr) <- "profileChr"

\end{ExampleCode}
\end{Examples}

