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I am very glad to receive your reply. Methylpy calculates a lower rate of methylation for the three types than Bismark (about half as much), and I tried to modify...

It is really interesting. We found that methylation rates of CpG, CHG and CHH types calculated with Bismark are 40%, 20% and 2% respectively, while those calculated with methylpy are...

Methylpy has a significant advantage in running speed and is easy to understand. In addition to comparing our own sequencing files, we also used methylpy to analyze the documented data...