name: "genmod_score"
description: Score the variants of a vcf based on their annotation
keywords:
  - score
  - genmod
tools:
  - "genmod":
      description: "Annotate genetic inheritance models in variant files"
      homepage: "https://github.com/Clinical-Genomics/genmod"
      documentation: "https://github.com/Clinical-Genomics/genmod"
      tool_dev_url: "https://github.com/moonso"
      doi: ""
      licence: "['MIT']"
input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - input_vcf:
      type: file
      description: vcf file
      pattern: "*.{vcf}"
  - family_file:
      type: file
      description: ped file
      pattern: "*.{ped}"
  - score_config:
      type: file
      description: rank model config file
      pattern: "*.{ini}"

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - vcf:
      type: file
      description: Output VCF file
      pattern: "*.{vcf}"

authors:
  - "@ramprasadn"