Methylation arrays have become a standard in clinics for epigenetic tumor profiling. While there is now a broad choice of tools to process and analyze methylation array data (RnBeads, Minfi, Sesame), none of them propose neat and complete quality control plots.

Here we introduce the R package Methview.qc which allows you to generate quality control plots from methylation array dataset.

Methview.qc utilizes RnBSet to store methylation datasets from both HumanMethylation450 and MethylationEPIC arrays. Its internal use of data.table boosts the memory-efficient processing of data, and the ggplot2 grammar provides R users with neat, yet customizable, publication-ready graphics to visualize quality control data.

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Funding: Development and maintenance funded by de.NBI.