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shishenyxx / DeepMosaic

DeepMosaic is a deep-learning-based mosaic single nucleotide classification tool without the need of matched control information.
https://www.nature.com/articles/s41587-022-01559-w
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speed up step 1? #8

Closed kunalkathuria closed 1 year ago

kunalkathuria commented 1 year ago

Hello,

I was trying to process a list of 4 million putative SNVs with your tool. Wondering if there's a way to speed up processing? It's been running for quite a few days. Would you advise running batches of variants independently and assembling the predictions at the end? Thanks!

Kunal

shishenyxx commented 1 year ago

Hi Kunal,

Thank you for your question, please split the input for both steps and you can always combine the output at the end.

Best,

Xiaoxu

kunalkathuria commented 1 year ago

Great, thanks!