\HeaderA{separateXMLDataByExpt}{A function that takes a vector of IntAct XML file name locations
and converts them to graph objects.}{separateXMLDataByExpt}
\keyword{models}{separateXMLDataByExpt}
\begin{Description}\relax
The separateXMLDataByExpt function takes in a vector of XML files
and generates a list of graph objects dividing the data by 
separately conducted experiments. If a single XML file contains
k experimental datasets, then k intactGraph objects will be produced.
\end{Description}
\begin{Usage}
\begin{verbatim}
separateXMLDataByExpt(intactFiles, type="direct", directed=TRUE)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{intactFiles}] A vector of IntAct XML file name locations, i.e.
either where they can be found on the local hard drive or an url
to where they can be obtained
\item[\code{type}] A character. Either "direct" or "indirect" based on the 
` the information that needs to be parsed.
\item[\code{directed}] A logical. User defined parameter so that the return
value with either be a directed or undirected graph object.
\end{ldescription}
\end{Arguments}
\begin{Value}
A list of intactGraph objects.
\end{Value}
\begin{Author}\relax
T Chiang
\end{Author}
\begin{References}\relax
Rintact: enabling computational analysis of molecular interaction data
from the IntAct repository - Tony Chiang; Nianhua Li; Sandra Orchard; Samuel 
Kerrien; Henning Hermjakob; Robert Gentleman; Wolfgang Huber
Bioinformatics 2007; doi: 10.1093/bioinformatics/btm518.
\end{References}
\begin{SeeAlso}\relax
\code{\LinkA{interactionEntry-class}{interactionEntry.Rdash.class}}, \code{\LinkA{complexEntry-class}{complexEntry.Rdash.class}},        
\code{\LinkA{intactXML2Graph}{intactXML2Graph}}
\end{SeeAlso}

