name: "vsearch_sintax"
description: Taxonomic classification using the sintax algorithm.
keywords:
  - vsearch
  - sintax
  - taxonomy
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"
      tool_dev_url: "https://github.com/torognes/vsearch"
      doi: "10.7717/peerj.2584"
      licence: ["GPL v3-or-later OR BSD-2-clause"]
      identifier: biotools:vsearch
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:
      - meta:
          type: file
          description: Results written to tab-delimited file
          pattern: "*.{tsv}"
      - "*.tsv":
          type: file
          description: Results written to tab-delimited file
          pattern: "*.{tsv}"
  - versions:
      - versions.yml:
          type: file
          description: File containing software versions
          pattern: "versions.yml"
authors:
  - "@jtangrot"
maintainers:
  - "@jtangrot"
