Dear all, I have posted a script and associated files to make it easier to:
1. process various types of Affymetrix genotyping array batches, using aroma.affymetrix, but with 2. (IMHO) improved value & segmentation plotting options (no EBImage, PDF output, inclusion of CNV regions, inclusion of >7800 "cancer related" genes ...) The comment can be found at http://groups.google.com/group/progenetix/web/aroma-affymetrix-processing-visualization The method has been used extensively here (e.g. currently for all GEO Affy genotyping files, up tp >700 x 250k), and seems robust. However, you have to tune it for your environment. I sometimes run into memory leakage problems, but this is probably not due to the front-end ... Pls. feel free to use & modify; however, I would be very glad for suggestions how to improve the processing. Best, Michael. Dr. Michael Baudis Institute of Molecular Biology University of Zurich Winterthurerstrasse 190 CH-8057 Zurich Switzerland email [email protected] web www.molbio.uzh.ch/baudis --~--~---------~--~----~------------~-------~--~----~ 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 -~----------~----~----~----~------~----~------~--~---
