DeepVariant

DeepVariant

description
Workflow for getting VCF and gVCF from DeepVariant. Note VCF is un-phased.

Inputs

Required

  • bai (File, required)
  • bam (File, required)
  • dv_memory (Int, required)
  • dv_threads (Int, required)
  • pepper_memory (Int, required)
  • pepper_threads (Int, required)
  • ref_fasta (File, required)
  • ref_fasta_fai (File, required)

Optional

  • deep_variant.runtime_attr_override (RuntimeAttr?)

Defaults

  • zones (String, default="us-central1-a us-central1-b us-central1-c us-central1-f"): select which zone (GCP) to run this task

Outputs

  • VCF (File)
  • VCF_tbi (File)
  • gVCF (File)
  • gVCF_tbi (File)

Dot Diagram

DeepVariant