id2image                Converting an id tag to a Set of Image
                        Coordinates and Vice Versa
init.addinfo            Adding Information to a Data Structure for
                        Multi-slide Microarray Experiments
init.ctl.index          Generates co-ordinates of spots.
init.data               Creating a Data Structure for Multi-slide
                        Microarray Experiments
init.grid               Initialization of Grid Parameters
init.name.exp           Set and Read the Names of Experimental Data.
init.read.exp           Reads the Output of the Computed Statistics
is.odd                  Determining if a Value is Odd or Even
log.na                  Basic Statistical Functions for Handling
                        Missing Values
MouseArray              Mouse Gene Expression Data from cDNA
                        microarray
mouse.lratio            Internal sma functions
plot.bayesian           Plots lodscore vs effect estimate (the output
                        of stat.bayesian() or stat.bay.est()).
plot.confband.lines     Adding Lines Satisfying a Confidence Criterion
                        to the Current M vs A Plot
plot.confband.points    Highlights a Set of Points on the Current M vs
                        A Plot
plot.confband.text      Add Selected Text to an M vs A Plot
plot.cor                Red and Green Color Image of Correlation
                        Matrix
plot.mat                Red and Green Color Image of Data Matrix
plot.mva                M vs. A Plot
plot.print.tip.lowess   M vs. A Plot with print tip lowess lines
plot.qq                 Histogram and Normal Quantile-Quantile plot
plot.qqline             Add Line Going Through the Quantiles of a Q-Q
                        Plot
plot.scale.box          Box plots for microarray
plot.single.slide       M vs. A Plot
plot.smooth.line        Adding Lowess Lines to Current Plot
plot.spatial            Spatial Representation of Microarray Spot
                        Statistics
plot.svb                Plot of Signal vs. Background
plot.t2                 Diagnostic Plots for Two-Sample t-statistics
read.genepix            Reading in Data Generated by the Image
                        Analysis Package GenePix.
read.spot               Reading in Data Generated by the Image
                        Analysis Package Spot
rgcolors.func           Red and Green Color Specification
stat.bayesian           Calculates an Odds Ratio of Each Gene in a
                        Multi-slide microarray Experiment
stat.bay.est            Calculates an Odds Ratio for Each Gene in a
                        Multi-slide Microarray Experiment.
stat.bwss               Between and Within Group Sum of Squares
                        Calculation
stat.Chen               Apply Chen's single slide method
stat.ChurSap            Apply Sapir and Churchills single slide method
stat.diag.da            Diagonal Discriminant Analysis
stat.gnames             Sort Genes According to the Value of a
                        Statistic
stat.ma                 Calculation of log Intensity Ratios and
                        Average log Intensities
stat.Newton             Apply Newtons single slide method
stat.norm.exp           Normalization of log Intensity Ratios across
                        slides / experiments.
stat.t2                 Two-sample t-statistics
write.spot              Writing in Data Generated by the Image
                        Analysis Package Spot
