ExtractSnpBarcodeFromVcfFile

ExtractSnpBarcodeFromVcfFile

author
Jonn Smith
description
A workflow that extracts a barcode from a VCF file using a haplotype database file.

Inputs

Required

  • haplotype_database_file (File, required): The haplotype database file.
  • ref_dict (File, required): The dictionary file for the reference fasta file.
  • ref_fasta (File, required): The reference fasta file.
  • ref_fasta_fai (File, required): The index file for the reference fasta file.
  • vcf (File, required): The VCF file to extract the barcode from.
  • vcf_index (File, required): The index file for the VCF file.

Optional

  • runtime_attr_override (RuntimeAttr?): The runtime attributes to override.

Defaults

  • prefix (String, default="barcode"): The prefix for the output files.

Outputs

  • output_vcf (File)
  • barcode (String)
  • barcode_file (File)

Dot Diagram

ExtractSnpBarcodeFromVcfFile