name: "vsearch_sintax"
description: Taxonomic classification using the sintax algorithm.
keywords:
  - vsearch
  - sintax
tools:
  - "vsearch":
      description: "VSEARCH is a versatile open-source tool for microbiome analysis, including chimera detection, clustering, dereplication and rereplication, extraction, FASTA/FASTQ/SFF file processing, masking, orienting, pair-wise alignment, restriction site cutting, searching, shuffling, sorting, subsampling, and taxonomic classification of amplicon sequences for metagenomics, genomics, and population genetics. (USEARCH alternative)"
      homepage: "https://github.com/torognes/vsearch"
      documentation: "None"
      tool_dev_url: "https://github.com/torognes/vsearch"
      doi: "doi: 10.7717/peerj.2584"
      licence: "['GPL v3-or-later OR BSD-2-clause']"

input:
  - meta:
      type: map
      description: Groovy Map containing query file information e.g. [ id:'test' ]
  - queryfasta:
      type: file
      description: Query sequences in FASTA or FASTQ format
      pattern: "*.{fasta,fa,fna,faa,fastq,fq}"
  - db:
      type: file
      description: Reference database file in FASTA or UDB format
      pattern: "*"

output:
  - tsv:
      type: file
      description: Results written to tab-delimited file
      pattern: "*.{tsv}"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"

authors:
  - "@jtangrot"