My question is: how do I get a gene list using Bioconductor from a .CEL file for the HG_U95Av2 array(from the arrays at http://www.broadinstitute.org/cgi-bin/cancer/publications/pub_paper.cgi?mode=view&paper_id=75 )?
I tried following the answer in this post Where To Get Cdf Files Needed To Analyze Data Obtained Via The Affymetrix Platform, but I couldn't do it. I can't figure out how to use the annotation library I found Bioconductor (http://www.bioconductor.org/packages/release/data/annotation/ look for gahgu95av2)
I already figured out how to do normalization of the files using justRMA, now I need the gene annotations for the numbers.
Your hints and and answers would be really helpful:-) Thank you!