name: fastqc description: Run FastQC on sequenced reads keywords: - quality control - qc - adapters - fastq tools: - fastqc: description: | FastQC gives general quality metrics about your reads. It provides information about the quality score distribution across your reads, the per base sequence content (%A/C/G/T). You get information about adapter contamination and other overrepresented sequences. homepage: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/ documentation: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/Help/ 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 1 and 2 for single-end and paired-end data, respectively. output: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - html: type: file description: FastQC report pattern: "*_{fastqc.html}" - zip: type: file description: FastQC report archive pattern: "*_{fastqc.zip}" - version: type: file description: File containing software version pattern: "*.{version.txt}" authors: - "@drpatelh" - "@grst" - "@ewels" - "@FelixKrueger"