Serotype STEC samples from paired-end reads or assemblies
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
seqs
:file
Illumina paired-end reads or an assembly
*.{fastq.gz,fasta.gz,fna.gz}
tsv
*.tsv
A tab-delimited report of results
versions_stecfinder
${task.process}
:string
The name of the process
stecfinder
The name of the tool
stecfinder --version 2>&1 | sed 's/^.*STECFinder version: //;'
:eval
The expression to obtain the version of the tool
versions
Cluster informed Shigatoxin producing E. coli (STEC) serotyping tool from Illumina reads and assemblies
