Hi! We are interested in running a GISTIC analysis on the data we obtained after segmentation with GLAD with Aroma, but there seems to be a problem regarding the start and end postions of the segments, which apparently do not match the physical positions of the markers file we are using for GISTIC.
Does the segmentation reports the actual physical position of the first and last markers or does it reports other nearby position? Another question, I have a copy number file obtained from paired analyisis in Partek Genomics Suite, and want to do the segmentation using GLAD or CBS. How can I incorporate my CN file into the Aroma pipeline to do the segmentation? Thanks al lot!! -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group. To post to this group, send email to [email protected] To unsubscribe from this group, send email to [email protected] For more options, visit this group at http://groups.google.com/group/aroma-affymetrix?hl=en
