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toml file and model training

Open hd2326 opened this issue 2 years ago • 0 comments

Greetings @iiSeymour !

I am trying to train my own bonito models, and it would be really appreciated if you could provide some insights into the following questions.

  1. What exactly do "--save-ctc" do? Specifically, what does the yielded "chunks.npy" contain? Maybe normalized event signal levels?
  2. What do the parameters in the toml file mean, specifically: [input] features [qscore] bias [qscore] scale [encoder] stride [encoder] winlen [encoder] scale [encoder] blank_score [global_norm] state_len
  3. Can I use different toml config files (different deep learning architectures) when running "bonito basecaller --save-ctc" and "bonito train"?

Thank you very much in advance for your help!

hd2326 avatar Mar 21 '22 23:03 hd2326