Hi I am trying to study different sets of publicly available data and private data in methylation. One challenge I need to deal with in order to do that comparison is that there are certain data sets which have been generated using Whole genome Bisulfite sequencing (WGBS) or Reduced Representation Bisulfite sequencing (RRBS) and then there are others which have been generated using MBD-seq.

What considerations and/or manipulations do people generally make when combining information from such data sets or comparing such datasets. Any pointers to such studies would be very helpful.

Regards