Dear list, I have a question which I think here is a good place to ask. Just want to know if there is any software package (from BioC or other places) which can process and estimate the copy numbers for Affymetrix SNP 6.0 arrays? I checked the BioC web site and found some packages for copy number estimation, but not sure which one can work on Affy SNP 6.0. Thanks! Yu Chuan