Determine Streptococcus pneumoniae serotype from Illumina paired-end reads
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
reads
:file
Input Illunina paired-end FASTQ files
*.{fq.gz,fastq.gz}
tsv
${prefix}/${prefix}.tsv
The predicted serotype in tab-delimited format
*.tsv
txt
${prefix}/detailed_serogroup_info.txt
A detailed description of the predicted serotype
*.txt
versions_seroba
${task.process}
:string
The name of the process
seroba
The name of the tool
seroba version
:eval
The expression to obtain the version of the tool
versions
SeroBA is a k-mer based pipeline to identify the Serotype from Illumina NGS reads for given references.
