name: "rhocall_viz"
description: Call regions of homozygosity and make tentative UPD calls
keywords:
  - roh
  - bcftools
  - runs_of_homozygosity
tools:
  - "rhocall":
      description: "Call regions of homozygosity and make tentative UPD calls."
      homepage: "https://github.com/dnil/rhocall"
      documentation: "https://github.com/dnil/rhocall"
      tool_dev_url: "https://github.com/dnil"
      licence: ["GPL v3"]

input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. `[ id:'sample1', single_end:false ]`
  - vcf:
      type: file
      description: VCF file
      pattern: "*.{vcf}"
  - roh:
      type: file
      description: Input RHO file produced from rhocall
      pattern: "*.{roh}"

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. `[ id:'sample1', single_end:false ]`
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - bed:
      type: file
      description: Bed file containing roh calls
      pattern: "*.{bed}"
  - wig:
      type: file
      description: Wig file containing roh calls
      pattern: "*.{wig}"

authors:
  - "@ramprasadn"
maintainers:
  - "@ramprasadn"
