1) select randomly a couple of raw images: DefxxxCy5.Tif and DefxxxCy3.Tif where "xxx" is the same number (except 664). Open them with ScanAlyze and apply a grid.
The grid should be 4 times 7x7 spots.
2) export the data and open Excel to visualize the numbers... Then use the files "table.xls" and "gene-list_sorted.xls" to help yourself to identify the genes.
3) try to apply a very simple normalisation using a global Red vs Green normalisation.
4) try the Def664 and Def665 images. What happend?