plot.stamCV {stam}R Documentation

Plots for StAM Cross Validation


Plots performance and redundancy as well as number of remaining nodes and genes for a cross validation in structured analysis of microarray data.


plot.stamCV(x, outfile = NULL, aclass = NULL, delta = NULL, 
            main = NULL, which = 0, res = 72, ps = FALSE, 
            pointsize = 16, ...)


x the object of type stamCV for which the plots are to be drawn
outfile name of output file if postscript or PNG graphics is to be generated. The extension of the file is chosen automatically according to the ps argument. If no outfile is specified, an interactive plot is attempted
aclass the name of the phenotype class of interest, usually the disease class
which choose the plot to be generated. 1:performance plot, 2:genes/nodes plot, 0:both plots in interactive mode, non otherwise.
delta if a delta is provided, vertical lines are added accordingly
main the main title of the plot, generated automatically if left blank
res resolution in points per inch
ps if set to TRUE postscript output is generated
pointsize the standard fontsize
... additional arguments to be passed to plot


This function generates two plots. The first one plots the root error rate, its performance and the graph redundancy versus the shrinkage level. The second plot depicts the number of remaining nodes and remaining accessible probesets for each shrinkage candidate.


Claudio Lottaz

See Also

[Package stam version 1.0.3 Index]