\HeaderA{intactGraph-class}{Class "intactGraph"}{intactGraph.Rdash.class}
\aliasA{show,intactGraph-method}{intactGraph-class}{show,intactGraph.Rdash.method}
\aliasA{translateIntactID,intactGraph-method}{intactGraph-class}{translateIntactID,intactGraph.Rdash.method}
\aliasA{translateNodeID, intactGraph-method}{intactGraph-class}{translateNodeID, intactGraph.Rdash.method}
\keyword{models}{intactGraph-class}
\begin{Description}\relax
A class representing the IntAct data as a graph. It is a 
superclass of the graph class.
\end{Description}
\begin{Section}{Objects from the Class}
Objects are usually created by \code{intactXML2Graph}.
\end{Section}
\begin{Section}{Slots}
\describe{
\item[\code{interactors}:] matrix, Each row represents one interactor. IntAct
IDs are used as row names. Each column represents one annotation. 
Annotations include: UniProt ID, gene symbol, full name, locus name, ORF name,
organism name, and NCBI taxonomy ID. Only those interactors which are 
the nodes of the intactGraph is given.
}
\end{Section}
\begin{Section}{Methods}
\describe{
\item[show] \code{signature(object = "intactGraph")}: a print method
\item[translateIntactID] \code{signature(object = "intactGraph")}: 
a method to translate IntAct codes to the various annotations.
\item[translateNodeID] \code{signature(object = "intactGraph")}:
a method that takes an intactGraph and translates each node ID from 
the IntAct accension IDs to any other supported identifier.}
\end{Section}
\begin{Author}\relax
T Chiang
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{intactXML2Graph}{intactXML2Graph}}
\end{SeeAlso}

