[BioC] Duplicated spots in limmaGUI

[Wonjong Moon]

Our slide design had some spots were duplicated and some were not. 
I am using limmaGUI, but duplicated spots were recognized by space
between spots.
How can I handle the spots that were not duplicated? 
Should add flags in spottype file and exclude those? 

Is there any way to combine duplicated spots by ID or name in Limma? 

Thank you.

Wonjong.
Bioinformatician
SBRI.