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nanoporetech / medaka

Sequence correction provided by ONT Research
https://nanoporetech.com
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Auto detecting polishing model based on fastq header information #419

Closed replikation closed 8 months ago

replikation commented 1 year ago

Hi there,

It's usually a bit "annoying" to choose the correct medaka model for genome polishing based on the provided guppy model. However, the newest MinKnow software prints the basecalling model into the fastq header. I wanted to ask if Medaka will be (or is) able to autodetect the correct model for polishing a fasta.

Describe the solution you'd like It would be great if Medaka could auto-detect the polishing model based on the provided fastq files or state if it can't find a suitable model.

cjw85 commented 9 months ago

We are looking into how this might be accomplished.

cjw85 commented 8 months ago

This is done in v1.11.0, see this section of the README.