# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/subworkflows/yaml-schema.json
name: "align_sequences"
description: Generate alignments from amino acid fasta files
keywords:
  - fasta
  - sequences
  - alignment
components:
  - famsa/align
  - mafft/align
input:
  - sequences:
      type: file
      description: |
        Amino acid fasta file containing amino acid sequences for alignment
  - alignment_tool:
      type: string
      description: |
        Alignment tool to use for generating the alignment. Options are 'famsa' or 'mafft'
output:
  - versions:
      type: file
      description: |
        Versions file containing the software versions used in the workflow
  - alignments:
      type: file
      description: |
        MSA files
authors:
  - "@vagkaratzas"
maintainers:
  - "@vagkaratzas"
