Pangenome toolbox for bacterial genomes
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
gff
:file
A set of GFF3 formatted files
*.{gff}
results
${prefix}_results/*
:directory
Directory containing PIRATE result files
*/*
aln
${prefix}_results/core_alignment.fasta
Core-genome alignment produced by PIRATE (Optional)
*.{fasta}
versions_pirate
${task.process}
:string
The name of the process
pirate
The name of the tool
PIRATE --version 2>&1 | sed 's/PIRATE //'
:eval
The expression to obtain the version of the tool
versions
Pangenome analysis and threshold evaluation toolbox
