name: seqtk_subseq
description: Select only sequences that match the filtering condition
keywords:
  - filtering,selection
tools:
  - seqtk:
      description: Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format
      homepage: https://github.com/lh3/seqtk
      documentation: https://docs.csc.fi/apps/seqtk/
      tool_dev_url: https://github.com/lh3/seqtk
      licence: ["MIT"]

input:
  - sequences:
      type: file
      description: FASTQ/FASTA file
      pattern: "*.{fq,fq.gz,fa,fa.gz}"
  - filter_list:
      type: file
      description: BED file or a text file with a list of sequence names
      pattern: "*.{bed,lst}"

output:
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - sequences:
      type: file
      description: FASTQ/FASTA file
      pattern: "*.{fq.gz,fa.gz}"

authors:
  - "@sidorov-si"