How to use HiPhase to get haplotype-specific Somatic SNV/INDEL?

google / deepsomatic

DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data.

BSD 3-Clause "New" or "Revised" License

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Closed DayTimeMouse closed 3 weeks ago

DayTimeMouse commented 3 weeks ago

Hi,

I saw the HiFi somatic workflow https://github.com/PacificBiosciences/HiFi-somatic-WDL/blob/main/figures/simple_workflow_diagram.png. After calling somatic SNV/INDEL(using deepsomatic, tumor/normal paired sample), then how should I do use HiPhase to get haplotype-specific Somatic SNV/INDEL?

Best regards.

pichuan commented 3 weeks ago

Hi @DayTimeMouse , I see that you've posted the question on https://github.com/PacificBiosciences/HiPhase/issues/52. That's a more suitable place to get your question answered. So I will close this issue now.