I am trying to integrate over 15 datasets into one RGChannelSet in order to normalise it using the package funtoonorm. I used GEOquery to get the datasets from GEO. However, since minfi only reads IDAT files, I could not get an RGset from GEO datasets that do not have IDAT files. Hence, I had to create a methylumi object from the series matrix text file from GEO. However, funtoonorm only works with minfi object. Would any of you know if there is a way of converting methylumi object into RGset?