Run Torsten Seemann’s classic MLST on a genome assembly
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
fasta
:file
Assembly fasta file
*.{fasta,fa,fna}
tsv
*.tsv
MLST calls in tsv format
*.{tsv}
versions_mlst
${task.process}
:string
The name of the process
mlst
The name of the tool
mlst --version 2>&1 | sed "s/mlst //"
:eval
The expression to obtain the version of the tool
versions
Scan contig files against PubMLST typing schemes
