Could I use config file for MinION/GridION to deal with fast5 produced by PromethION?

nanoporetech / megalodon

Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.

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Could I use config file for MinION/GridION to deal with fast5 produced by PromethION? #230

Closed mantonglaw closed 2 years ago

mantonglaw commented 2 years ago

Hi,I wonder whether I could use res_dna_r941_min_modbases_5mC_v001.cfg to call methylation for data produced by PromethION? Or do you have some suggestions for me to call 6mA methylation for PromethION data?

marcus1487 commented 2 years ago

This model should work reasonably well for promethion data, but I would strongly recommend moving to the remora models (integrated into megalodon) for 5mC in CG context moving forward. We are working to add additional features for mod detection including all-context 5mC and additional modified bases including 6mA.