Hello everyone. I have processed data, containing 4 columns (chromosome, start, end, beta value ) for each sample. and 2 groups (patient and normal). I want to find differentially methylated positions between these 2 groups using DMPfinder in minfi Package. but I don't know the format of input data for these codes:

M <- getM(mset, type = "beta", betaThreshold = 0.001) dmp <- dmpFinder(M, pheno=pd$Sample_Group, type="categorical")

You can refer to the vignette : https://www.rdocumentation.org/packages/minfi/versions/1.18.4/topics/dmpFinder

M should be a "Methylset" or a matrix, so if you have already processed data, you can transform your data to a matrix of beta (or M)-values (Cpg in rows, samples in columns)