Determine Shigella serotype from Illumina or Oxford Nanopore reads
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
reads:file
Illumina or Nanopore FASTQ file
*.fastq.gz
tsv
${prefix}.tsv:file
A TSV formatted file with ShigaTyper results
*.tsv
hits
${prefix}-hits.tsv:file
A TSV formatted file with individual gene hits
*-hits.tsv
versions
versions.yml:file
File containing software versions
versions.yml
Typing tool for Shigella spp. from WGS Illumina sequencing
