Sniffles2

Sniffles2

description
This workflow calls SV candidates using Sniffles2 population mode.

Inputs

Required

  • prefix (String, required): prefix for output files
  • sampleBAIs (Array[File], required): GCS paths to aligned BAM files indices from multiple samples
  • sampleBAMs (Array[File], required): GCS paths to aligned BAM files from multiple samples
  • sampleIDs (Array[String], required): matching sample IDs of the BAMs

Optional

  • MergeCall.runtime_attr_override (RuntimeAttr?)
  • SampleSV.runtime_attr_override (RuntimeAttr?)

Defaults

  • minsvlen (Int, default=50): Minimum SV length in bp

Outputs

  • single_snf (Array[File])
  • multisample_vcf (File)

Dot Diagram

Sniffles2