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gustaveroussy / bigr_long-reads_bulk

Long-reads Bulk DNA-seq pipeline
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Add DeepSomatic to the Somatic part of the pipeline #4

Open sandratra-rab opened 2 weeks ago

sandratra-rab commented 2 weeks ago

It would be great to compare DeepSomatic & ClairS output or to generate a consensus vcf using both

https://github.com/google/deepsomatic https://github.com/google/deepsomatic/blob/r1.6.1/docs/deepsomatic-quick-start.md https://github.com/google/deepvariant/blob/r1.6.1/docs/deepvariant-ont-r104-simplex-case-study.md

sandratra-rab commented 1 week ago

There is no Nanopore model available for now and the PacBio model is not expected to work on Nanopore https://github.com/google/deepsomatic/issues/12