[BioC] dye-swap and arrayMagic

[Dr_Gyorffy_Balazs]

Hallo everyone!

I have analysed 108 Genepix arrays using the arrayMagic
package. However, I have a problem: every second array is a
repetition of the previous array with dye-swap (normal: 1,
3, 5, ... dye-swap: 2, 4, 6, ...). How can I correct the
logratios output (the writeToFile function) in order to get
the correct values for the dye-swapped chips?

Thank
Balazs Györffy