Studies with both EPICv1 and EPICv2 - genetics-of-dna-methylation-consortium/godmc_phase2 GitHub Wiki

If you have a dataset with both EPICv1 and EPICv2 please combine them in one batch.

We recommend to add a covariate for array.

In the config file you can add epic:epic2 as methylation array.

Meffil can normalise these data in one batch:

qc.objects <- meffil.qc(samplesheet, featureset="epic:epic2", verbose=T)