Comments (9)
Nothing to see there. The reads are "fine" but there are no methylation calls on them. The methylation likelihoods on 'C' bases are all low as you can see by parsing the ml tag. Currently absence of MM/MP tags mean "no methylation" for all sites.
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Hmm do you think it would be possible to share the cram file or post the first 5 lines of it?
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Hi Here is the header + 5 lines of ONT-CRAM ont-5.txt.
Thanks for having a look!
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Remarkable, the MM tag is there... let me think :)
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Is sharing the entire file possible?
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Hi @wdecoster ,
You can find the files in both this directions:
Thank you for having a look!
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So I've downloaded these files and indeed, there are reads (about 25%) that do not have the MM and MP tag. I'll tag @kpalin here, perhaps you have some insights to share? Did those reads not reach a certain quality/confidence score?
I could, of course, modify methplotlib to ignore reads without methylation tags, but I'd prefer to figure out first why these are absent.
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Okay thanks then I know how to handle these
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Things should be fixed in methplotlib-0.14.0!
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