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