name: malt_build description: MALT, an acronym for MEGAN alignment tool, is a sequence alignment and analysis tool designed for processing high-throughput sequencing data, especially in the context of metagenomics. keywords: - malt - alignment - metagenomics - ancient DNA - aDNA - palaeogenomics - archaeogenomics - microbiome - database tools: - malt: description: A tool for mapping metagenomic data homepage: https://www.wsi.uni-tuebingen.de/lehrstuehle/algorithms-in-bioinformatics/software/malt/ documentation: https://software-ab.informatik.uni-tuebingen.de/download/malt/manual.pdf tool_dev_url: None doi: "10.1038/s41559-017-0446-6" licence: ['GPL v3'] input: - fastas: type: file description: Directory of, or FASTA reference files for indexing pattern: "*/|*.fasta" - seq_type: type: string description: Type of input data pattern: "DNA|Protein" - gff: type: file description: Directory of, or GFF3 files of input FASTA files pattern: "*/|*.gff|*.gff3" - map_db: type: file description: MEGAN .db file from https://software-ab.informatik.uni-tuebingen.de/download/megan6/welcome.html pattern: output: - version: type: file description: File containing software version pattern: "*.{version.txt}" - index: type: directory description: Directory containing MALT database index directory pattern: "malt_index/" - log: type: file description: Log file from STD out of malt-build pattern: "malt-build.log" authors: - "@jfy133"