name: "motus_profile" description: Taxonomic meta-omics profiling using universal marker genes keywords: - classify - metagenomics - fastq - taxonomic profiling tools: - "motus": description: "Marker gene-based OTU (mOTU) profiling" homepage: "https://motu-tool.org/" documentation: "https://github.com/motu-tool/mOTUs/wiki" tool_dev_url: "https://github.com/motu-tool/mOTUs" doi: "10.1038/s41467-019-08844-4" licence: "['GPL v3']" input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - reads: type: file description: | List of input fastq/fasta files of size 1 and 2 for single-end and paired-end data, respectively. Or the intermediate bam file mapped by bwa to the mOTUs database or the output bam file from motus profile pattern: "*.{fastq,fq,fasta,fa,fastq.gz,fq.gz,fasta.gz,fa.gz,.bam}" - db: type: directory description: | mOTUs database downloaded by `motus downloadDB` output: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - versions: type: file description: File containing software versions pattern: "versions.yml" - out: type: file description: Results with taxonomic classification of each read pattern: "*.out" - bam: type: file description: Optional intermediate sorted BAM file from BWA pattern: "*.{bam}" authors: - "@jianhong"