name: "centrifuge_kreport" description: Creates Kraken-style reports from centrifuge out files keywords: - metagenomics tools: - centrifuge: description: Centrifuge is a classifier for metagenomic sequences. homepage: https://ccb.jhu.edu/software/centrifuge/ documentation: https://ccb.jhu.edu/software/centrifuge/manual.shtml doi: 10.1101/gr.210641.116 licence: ["GPL v3"] input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - report: type: file description: File containing the centrifuge classification report pattern: "*.{txt}" 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" - kreport: type: file description: | File containing kraken-style report from centrifuge out files. pattern: "*.{txt}" authors: - "@sofstam" - "@jfy133"