\HeaderA{addXYfromGAL}{Computing the coordinates of the spots on a slide}{addXYfromGAL}
\aliasA{addXYfromGAL-methods}{addXYfromGAL}{addXYfromGAL.Rdash.methods}
\keyword{file}{addXYfromGAL}
\keyword{manip}{addXYfromGAL}
\begin{Description}\relax
From the coordinates of the blocks of a microarray slide and the Row
and Column locations of the spots within the blocks,
\code{addXYfromGAL} computes the X and Y coordinates of the spots of a
slide.
\end{Description}
\begin{Usage}
\begin{verbatim}
addXYfromGAL(x, gal.file, nBlocks, skip, ...)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{x}] is an \code{AnnotatedDataFrame} representing the featureData
of an object. 
\item[\code{gal.file}] name of the file .gal that contains the coordinates
of the blocks. 
\item[\code{nBlocks}] number of blocks on the slide. 
\item[\code{skip}] number of header lines to skip when reading the
gal.file. 
\item[\code{...}] Arguments that get passed on to \code{read.table}.
\end{ldescription}
\end{Arguments}
\begin{Value}
The object \code{x} of class \code{AnnotatedDataFrame} will be
returned with two added columns: X and Y corresponding to the absolute
position of the probes on the array.
\end{Value}
\begin{Author}\relax
Audrey Kauffmann, Wolfgang Huber.
Maintainer: <audrey@ebi.ac.uk>
\end{Author}

