smithlabcode / methpipe

A pipeline for analyzing DNA methylation data from bisulfite sequencing.
http://smithlabresearch.org/methpipe
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size of HMRs from RRBS compared to WGBS #229

Closed farmohh closed 2 years ago

farmohh commented 2 years ago

Hi, Thank you very much for the great pipeline.

I have two different datasets which are resulted from two different techniques. (i.e, WGBS and RRBS). I would like to identify HMRs in both datasets and comprare their sizes. I was wondering if I can compare the size of HMRs resulted from WGBS dataset with HMRs from RRBS dataset? I know that RRBS data is very sparse compared to WGBS. Does this mean that HMRs from RRBS will get broken up by short stretches of CpGs that don't exhibit signal compared to WGBS HMRs?

Thank you