\HeaderA{mvaplot.dev}{MvA Scatter Plot for Device}{mvaplot.dev}
\keyword{device}{mvaplot.dev}
\begin{Description}\relax
Produce scatter plots of M values vs A values of the samples for the selected device.
\end{Description}
\begin{Usage}
\begin{verbatim}
mvaplot.dev(x, transfo = log2, method = "median", names = "namepart", ylim = c(-6, 6), xlab = "A", ylab = "M", pch = ".", mar = c(3, 3, 2, 1), dev = "screen", outfile = "MvAPlot", w = 540, h = 540, ...)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{x}] object of class \code{\LinkA{ExprTreeSet}{ExprTreeSet}}.
\item[\code{transfo}] a valid function to transform the data, usually \dQuote{log2}, or \dQuote{0}.
\item[\code{method}] method to compute M, \dQuote{mean} or \dQuote{median}.
\item[\code{names}] optional vector of sample names.
\item[\code{ylim}] range for the plotted M values.
\item[\code{xlab}] a title for the x axis.
\item[\code{ylab}] a title for the y axis.
\item[\code{pch}] either an integer specifying a symbol or a single character to be used in plotting points.
\item[\code{mar}] plot margin.
\item[\code{dev}] graphics device to plot to, i.e. one of \dQuote{screen}, \dQuote{jpeg},\dQuote{png},
\dQuote{pdf} or \dQuote{ps}.
\item[\code{outfile}] the name of the output file.
\item[\code{w}] the width of the device in pixels.
\item[\code{h}] the height of the device in pixels.
\item[\code{...}] optional arguments to be passed to \code{plot}.
\end{ldescription}
\end{Arguments}
\begin{Details}\relax
Produces mvaplots for slot \code{data} for an object of class \code{\LinkA{ExprTreeSet}{ExprTreeSet}}
for the selected graphics device.

For \code{names=NULL} full column names of slot \code{data} will be displayed while for 
\code{names="namepart"} column names will be displayed without name extension. If \code{names}
is a vector of column names, only these columns will displayed as mvaplot.
\end{Details}
\begin{Author}\relax
Christian Stratowa
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{mvaplot}{mvaplot}}
\end{SeeAlso}

