Hello, I have an array where all printed spots are duplicate. I also have duplicated controls per array block. In total 32 block tant contains each time 2 probes of the same control. For the rest of the array all the other printed spots are duplicated once. Every time probes are next to each other. I apply the following function: corfit <- duplicateCorrelation(mat, design, ndups=2) it seems to work properly but i'm not sure how my controls are handled ?