I am trying to normalize between 2 Illumina 450K methylation arrays (~480000 probes/sample for 16 samples).  The density plots (prior.plots=T) of the 2 arrays is such that I need to use ComBat in the nonparametric mode (red and black do not overlay well), which as expected took a very long time (1 month).  Is there a way to parallelize ComBat so that it can run faster?

Thanks

Jeremy Rosenblum, MD

Assistant Professor of Pediatrics
Pediatric Hematology/Oncology
Children's Hospital at Montefiore
Office:  (718)-741-2342
Lab: (718)-678-1162
Fax:  (718)-920-6506


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