Is it possible to merge EPIC and 27k methylation array data and carry out a normalization of the combined data? I merged the two data using combineArrays function from MINFI. But I had to convert the arrays from RGChannel set to methyl set in order to do this. Now I cannot normalize the data in methyl set form using preprocessFunnorm as it needs an RGChannel set as input.
Thanks James. That was very helpful.