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Workflow DNA methylation analysis pipeline – normalization and quality assessment. Samples are normalized using the Illumina-like process with the minfi package in R. Afterwards, beta values are calculated. The quality of each sample is assessed by the newly implemented DB-Score, BIN-Score and the three measures based on deviations from consistently high or low CM-Scores. Loci with a detection P-value > 0.01 were filtered out and samples with a loci call rate (LCR) < 98% are excluded.
