nanopore data analysis methylation modification

Question

[Domi]

Hi all

I have two sets of nanopore DNA sequencing data (experimental group and control group). Using the mCaller tool, I extracted the 6mA methylation information from these two sets of data, resulting in two files(Fig1/2).

Next, I would like to compare the overall methylation levels and the genome-wide methylation levels of these two groups of results. To produce graphs similar to Figure 3 to 5, what kind of pipeline can I use? Can anyone recommend some tools for me?