name: kleborate description: Kleborate is a tool to screen genome assemblies of Klebsiella pneumoniae and the Klebsiella pneumoniae species complex (KpSC). keywords: - screening assemblies - Klebsiella pneumoniae tools: - kleborate: description: Screening Klebsiella genome assemblies for MLST, sub-species, and other Klebsiella related genes of interest homepage: https://github.com/katholt/Kleborate documentation: https://github.com/katholt/Kleborate/wiki tool_dev_url: https://github.com/katholt/Kleborate doi: 10.1038/s41467-021-24448-3 licence: ['GPL v3 or later (GPL v3+)'] input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - fastas: type: files description: Klebsiella genome assemblies to be screened pattern: "*.fasta" 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" - txt: type: file description: Result file generated after screening pattern: "*.txt" authors: - "@abhi18av" - "@rpetit3"