Hello, I have a question regarding to TumorBoost. I have data from Affymetrix (GenomeWideSNP_6) and Illumina (*Omni1*-*Quad*) for the same set of samples. I want to do normalization of CNV for the data from both platforms for the purpose of comparison and false positive cut.
I can follow the vignettes ( http://aroma-project.org/vignettes/tumorboost-highlevel) for applying TumorBoost on data from Affymetrix. However, I have no idea how to apply it to the data from Illumina. I can export BAF, LRR, and other information from Illumina's GenomeStudio in a text file format, using "Report Wizard". It seems that TumorBoost requires binary format of BAF and genotype call (i.e., *.asb and *.acf respectively). How can I make such binary files from the text file? Thank you. -- 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 with website http://www.aroma-project.org/. To post to this group, send email to [email protected] To unsubscribe and other options, go to http://www.aroma-project.org/forum/
