I want to load IdatFiles from two different datasets to perform ChAMP analysis. One dataset has arraytype 450k, the other EPIC. If I want to load the data using the following script, I have to choose one of the arraytypes and therefore I get an error. Does anyone know how to solve?
filesDATA <- './IdatFiles' myloadDATA <- champ.load(directory = filesDATA, method="ChAMP", methValue="B", autoimpute=TRUE, filterDetP=TRUE, ProbeCutoff=0, SampleCutoff=0.1, detPcut=0.01, filterBeads=TRUE, beadCutoff=0.05, filterNoCG=TRUE, filterSNPs=TRUE, population=NULL, filterMultiHit=TRUE, filterXY=TRUE, # not default force=FALSE, arraytype=" ")