name: racon description: Consensus module for raw de novo DNA assembly of long uncorrected reads keywords: - assembly - pacbio - nanopore - polish tools: - racon: description: Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. homepage: https://github.com/lbcb-sci/racon documentation: https://github.com/lbcb-sci/racon tool_dev_url: https://github.com/lbcb-sci/racon doi: https://doi.org/10.1101/gr.214270.116 licence: ["MIT"] 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 files. Racon expects single end reads pattern: "*.{fastq,fastq.gz,fq,fq.gz}" - assembly: type: file description: Genome assembly to be improved pattern: "*.{fasta,fa}" - paf: type: file description: Alignment in PAF format pattern: "*.paf" 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" - improved_assembly: type: file description: Improved genome assembly pattern: "*_assembly_consensus.fasta.gz" authors: - "@avantonder"