\HeaderA{overlap}{Count the number of proteins shared by protein complexes}{overlap}
\keyword{data}{overlap}
\keyword{manip}{overlap}
\begin{Description}\relax
Count the number of proteins shared by protein complexes
\end{Description}
\begin{Usage}
\begin{verbatim}
overlap(interactome)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{interactome}] Binary matrix composed of genes (rows) and biological
complexes (columns) (see package \emph{ScISI})
\end{ldescription}
\end{Arguments}
\begin{Value}
The returned value is a data frame with components:
\begin{ldescription}
\item[\code{C1}] Name of the first biological complex
\item[\code{C2}] Name of the second biological complex
\item[\code{nbSharedProt}] Number of proteins in common
\end{ldescription}
\end{Value}
\begin{Author}\relax
N. LeMeur
\end{Author}
\begin{SeeAlso}\relax
\emph{ScISI}
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
xx = cbind("a"=c(0,1,1,1),"b"=c(1,1,0,1))
overlap(xx)
\end{ExampleCode}
\end{Examples}

