name: busco
description: Benchmarking Universal Single Copy Orthologs
keywords:
  - quality control
  - genome
  - transcriptome
  - proteome
tools:
  - busco:
      description: BUSCO provides measures for quantitative assessment of genome assembly, gene set, and transcriptome completeness based on evolutionarily informed expectations of gene content from near-universal single-copy orthologs selected from OrthoDB.
      homepage: https://busco.ezlab.org/
      documentation: https://busco.ezlab.org/busco_userguide.html
      tool_dev_url: https://gitlab.com/ezlab/busco
      doi: "10.1007/978-1-4939-9173-0_14"
      licence: ['MIT']

input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - fasta:
      type: file
      description: Nucleic or amino acid sequence file in FASTA format
      pattern: "*.{fasta}"
  - augustus_config:
      type: directory
      description: AUGUSTUS config directory

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"
  - tsv:
      type: file
      description: Full summary table
      pattern: "*.{tsv}"
  - txt:
      type: file
      description: Short summary text
      pattern: "*.{txt}"

authors:
  - "@priyanka-surana"
  - "@charles-plessy"