Determine Shigella serotype from assemblies or Illumina paired-end reads
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
seqs
:file
Assembly or paired-end Illumina reads
*.{fasta,fasta.gz,fastq.gz}
tsv
*.tsv
A TSV formatted file with ShigEiFinder results
versions_shigapass
${task.process}
:string
The name of the process
shigapass
The name of the tool
1.3.5
The expression to obtain the version of the tool
versions
Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies
