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HKU-BAL / ClairS

ClairS - a deep-learning method for long-read somatic small variant calling
BSD 3-Clause "New" or "Revised" License
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question: model for 5khz data #10

Closed bakeronit closed 1 year ago

bakeronit commented 1 year ago

Hi Ruibang,

Since nanopore sequencing software updated to 5kHz sampling mode, I am wondering if there will be a pre-trained model for 5kHz data. Can I still use --platform ont_r10 (ont_r104_e81_sup_g5015) for now? Thank you.

Cheers Jia

aquaskyline commented 1 year ago

No, 5khz needs a different model. We will release a draft 5khz model soon. A full 5khz model trained on more samples is also on our schedule. At some point, ONT will also start to provide ClairS model for new chemistries.

bakeronit commented 1 year ago

That makes sense. Thank. you.

zhengzhenxian commented 1 year ago

@bakeronit

We have released ClairS v0.1.3 with the ONT Dorado 5kHZ(use -p ont_r10_dorado_5khz) model included. Pls kindly try and let us if you have any issue, thanks!

bakeronit commented 1 year ago

That's great! will have a try. Thank you.