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 |