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Oxford Nanopore's Basecaller
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What does `--emit-moves` in the basecaller do? #751

Closed skranz0 closed 2 months ago

skranz0 commented 2 months ago

Issue Report

I am basecalling Nanopore data for methylation calling with DeepMod2 which tells me to use the --emit-moves flag with dorado aligner. I'm struggling to find what this actually does. In the list output by dorado aligner --help the according field is just blank.

Can someone help me understand what the moves table is?

Run environment:

HalfPhoton commented 2 months ago

Please see https://github.com/nanoporetech/dorado/issues/110 which discussed the move table definition.

Kind regards, Rich

skranz0 commented 2 months ago

That was very helpful, thanks! I would like to have a short explanation with dorado base caller --help instead of just a blank line nonetheless.