Hi, I'm new to aroma and bioC in general, so these are probably a very straightforward questions:
I am using aroma to get QC on some Human Affymetrix Gene arrays. 1. To keep it consistent with previous analyses using RMA pre- processing (BKG subtraction, quantile normalization and median polish summarization), can I use the medpolish function instead of RmaPlm? 2. I read in the forum that NUSE plots aren't available when you summarize using medpolish, is this the case? 3. Is there a vignette/pdf file similar to BioC that lists all the available functions for aroma? 4. How can I export the RMA pre-processed data matrix to another 3rd party software? 5. Is there a function for MvA plots? 6. How do I format plots? ie alter range, color etc Sorry for these newbie questions... Steve. -- 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 aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/
