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nanoporetech / remora

Methylation/modified base calling separated from basecalling.
https://nanoporetech.com
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Possible to call 4mC, 5mC, and 6mA? #162

Closed Ge0rges closed 6 months ago

Ge0rges commented 7 months ago

Hello,

I was wondering if it would be possible to separately use the 4mC+5mC, and 6mA models go get all context modifications for all three from the sequencing data and ideally into the same BAM.

marcus1487 commented 6 months ago

Yes. Dorado accepts the --modified-bases-models argument. The path to multiple comma separated models can be passed to this option to run the 4mC+5mC and 6mA models simultaneously. Remora infer does not currently allow this option, but this should be available in the next release.

Flower9618 commented 3 months ago

Hello, @marcus1487. Thanks so much for your reply. How about the performance for 5hmC, 4mC and 6mA prediction?