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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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Indel predictions #31

Closed RP-Bioinfo closed 8 months ago

RP-Bioinfo commented 8 months ago

Hi, I'm testing Deepmosaic on a true positive and I have noticed that the predictions.txt file does not contain the true positive variant because it is a Indel. Predictions.txt does not contain any Indel that is present in the input vcf file and I tried also to recalculate Indel qualities in the BAM file with Dindel but it seems that this tool can handle only SNVs. Can you confirm this?

Best Regards,

Riccardo

shishenyxx commented 8 months ago

Hi Riccardo,

Thank you for the question, the current version of DeepMosaic only supports SNVs.

Best,

Xiaoxu