| Function | Description |
| affycomp.compfigs.auxiliary | Auxiliary functions to create comparitive Figures |
| affycomp.figures.auxiliary | Auxiliary functions to create Figures |
| affycompPlot | Assessment Plots |
| affycompTable | Expression Assessment Table |
| assessAll | Assessment functions |
| assessDilution | Assessment functions for Dilution Data |
| assessSD | SD Assessment functions |
| assessSpikeIn | Assessment functions for Spike In Data |
| assessSpikeIn2 | New Assessment functions for Spike In Data |
| dilution.phenodata | Phenotypic Information for Dilution Study |
| exprset.log | Take log base 2 of Expression |
| hgu133a.spikein.phenodata | phenotypic information for HGU133A spike in study |
| hgu133a.spikein.xhyb | Cross hybridizers |
| lw.sd.assessment | An example of the result of an SD assessment |
| mas5.assessment | An example of the result of the assessments |
| readin | Read Expression Date Sets |
| remove.hgu133a.xhyb | Remove crosshybridizers |
| rma.assessment | An example of the result of an assessment |
| rma.sd.assessment | An example of the result of an SD assessment |
| SD | SD Assessment Functions |
| spikein.phenodata | phenotypic information for spike in study |