Hey folks, I'm hoping that someone out there might be able to point my in the right direction for pre-existing packages/methods for applying corrections (like harshlight) to Agilent arrays. I have an array in my dataset with some pretty clear spatial artifacts that I'd like to mask out. However, harshlight (the most commonly cited package for this sort of thing) appears to be only set to work with AffyBatch objects, not the RGLists that are generated by Limma (which seems the most natural way I've found for processing raw data from Agilent arrays). Thoughts? Many thanks, David