Calculate confidence scores from Kraken2 output
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
kraken_result{:bash}
:file
Raw Kraken2 standard output file
kraken_taxon_db{:bash}
Kraken2 taxo.k2d database file
score{:bash}
*.score{:bash}
Conifer report file containing confidence scores of Kraken2 classified reads.
*.score
versions_conifer{:bash}
${task.process}{:bash}
:string
The name of the process
conifer{:bash}
The name of the tool
conifer --version 2>&1 | sed 's/^.*Conifer //'{:bash}
:eval
The expression to obtain the version of the tool
versions{:bash}
