Hi There,
  I am using normalizeWithinArrays function from the limma package for a within array normalization . There were no missing/NA values in the input data file, however, after the within array normalization, there are some of NA values in the M file , I wonder under which condition the function returns NA to M ? How can I do a between array normalization based on the within array normalized data which has some NA values?
  FYI - My data is aCGH data from Agilent, the normalization method I used was loess .

thank you very much!

I am looking forward to hearing back from you!

Joan Zhang


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