I am trying to perform funtooNorm on a RGSet object, that has samples run on 450K and EPIC arrays. I combined the two objects using combineArrays function in minfi. I am able to perform funtooNorm on 450K data object separately, but not on EPIC data or combined data object. I get the following error message.
mySampleSet <- fromRGChannelSet(RGSet_combined)
Error in minfi::getRed(myRGChannelSet)[controlTable$Address, ] :
subscript out of bounds
I am using R 3.4 and all my packages are updated. I have checked the "cell_type" field in pheno data. Could anyone help me resolve this issue?