\HeaderA{GS2BC}{Convertor for GeneSpring GSint and Bioconductor ExpressionSet
objects}{GS2BC}
\keyword{models}{GS2BC}
\begin{Description}\relax
This function converts GeneSpring Experiment
(Interpretation) objects into BioConductor microarray expression
objects.
\end{Description}
\begin{Usage}
\begin{verbatim}
  GS2BC(interpretation, what = "nor")
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{interpretation}] GeneSpring Experiment Interpretation object.
\item[\code{what}] For GSload.intBC() only. Indicates what data from the
GeneSpring Experiment Interpretation should be used. Valid values
for what can be \code{nor} and \code{raw}, representing Normalized
or Raw expression values. The control values cannot be used.
\end{ldescription}
\end{Arguments}
\begin{Details}\relax
The \pkg{Envisage} package contains methods allowing the use of
linear models (LMs) for analysing significantly changing genes in
experiments with a variety of sources of variation, be they
experimentally controlled variables such as drug treatment or time, or
non-controlled sources of confounding variation such as phenotypic or
environmental differences. This allows all sources of variation to be
considered when analysing for significant differential expression,
ensuring resulting genes are biologically relevent to the experimental
question. 

\code{\LinkA{GS2BC}{GS2BC}} is slightly changed from function 
\code{\LinkA{GSint2BC}{GSint2BC}} from package \pkg{GeneSpring},
which currently only supports the defunct \code{exprSet} class of
data.
\end{Details}
\begin{Author}\relax
Sam Robson \email{S.C.Robson@warwick.ac.uk}
\end{Author}
\begin{References}\relax
Robson, S. C., Hunter, E., Bird, H., Turner, H. (2008) 
\emph{Envisage: model-based significance analysis of microarray gene
expression data}, manuscript in preparation
\end{References}
\begin{SeeAlso}\relax
\code{\LinkA{GSint2BC}{GSint2BC}}
\end{SeeAlso}

