name: agat_convertspgff2tsv
description: |
  Converts a GFF/GTF file into a TSV file
keywords:
  - genome
  - gff
  - gtf
  - conversion
  - tsv
tools:
  - agat:
      description: "AGAT is a toolkit for manipulation and getting information from GFF/GTF files"
      homepage: "https://github.com/NBISweden/AGAT"
      documentation: "https://agat.readthedocs.io/"
      tool_dev_url: "https://github.com/NBISweden/AGAT"
      doi: "10.5281/zenodo.3552717"
      licence: ["GPL v3"]
input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - gff:
      type: file
      description: Annotation file in GFF3/GTF format
      pattern: "*.{gff, gtf}"
output:
  - tsv:
      type: file
      description: Annotation file in TSV format
      pattern: "*.{gtf}"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
authors:
  - "@rannick"
