name: flash description: Perform merging of mate paired-end sequencing reads keywords: - sort - reads merging - merge mate pairs tools: - flash: description: | Merge mates from fragments that are shorter than twice the read length homepage: https://ccb.jhu.edu/software/FLASH/ documentation: {} doi: 10.1093/bioinformatics/btr507 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 files of size 2; i.e., paired-end data. pattern: "*fastq.gz" output: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - reads: type: file description: The merged fastq reads pattern: "*fastq.gz" - version: type: file description: File containing software version pattern: "*.{version.txt}" authors: - "@Erkison"