anovaint                One-factorial ANOVA assessing
                        intensity-dependent bias
anovapin                One-factorial ANOVA assessing pin-dependent
                        bias.
anovaplate              One-factorial ANOVA assessing pin-dependent
                        bias.
anovaspatial            One-factorial ANOVA assessing spatial bias
backgroundCorrect2      Background correction
bas                     Between-array scaling
colorbar.mxy            Generates a colour bar
colorbar.mxy.abs        Generates a colour bar
colorbar.sig            Generates a colour bar for spatial significance
                        plots
fdr.int                 Assessment of the significance of
                        intensity-dependent bias
fdr.int2                Assessment of the significance of
                        intensity-dependent bias
fdr.spatial             Assessment of the significance of spatial bias
fdr.spatial2            Assessment of the significance of spatial bias
fgbg.visu               Visualisation of foreground and background
                        fluorescence spot intensities in both channels
ino                     Intensity-dependent normalisation of two-colour
                        microarrays
lin                     Local intensity-dependent normalisation of
                        two-colour microarrays
m2v                     Converts matrix to vector based on spot layout
ma.matrix               Calculation of moving average for a matrix
ma.vector               Calculation of moving average for a vector
mxy.abs.plot            Generation of MXY plots of absolute values
mxy.plot                Generation of MXY plots
mxy2.plot               Generation of MXY plots based on spot
                        coordinates
oin                     Optimised intensity-dependent normalisation of
                        two-colour microarrays
olin                    Optimised local intensity-dependent
                        normalisation of two-colour microarrays
p.int                   Calculates significance of intensity-dependent
                        bias
p.int2                  Calculates significance of intensity-dependent
                        bias
p.spatial               Assessment of the significance of spatial bias
                        based on p-values
p.spatial2              Assessment of the significance of spatial bias
                        based on p-values
sig.mask                Masking of data based on significance testing
sigint.plot             Visualisation of significance of
                        intensity-dependent bias
sigint.plot2            Visualisation of significance of
                        intensity-dependent bias
sigxy.plot              Visualisation of significance tests for spatial
                        bias
sigxy.plot2             Visualisation of significance tests for spatial
                        bias
sw                      cDNA microarray data of SW480/SW620 experiment
sw.olin                 Normalised cDNA microarray data of SW480/SW620
                        experiment
sw.xy                   Spatial coordinates of spot locations of
                        SW480/SW620 experiment
v2m                     Converts vector to matrix based on spot layout
