Input
Name (Type)
Description
Pattern
List of input FastQ files of size 1 and 2 for single-end and paired-end data,
respectively.
If true, optional commands are added to save classified and unclassified reads
as fastq files
Output
Name (Type)
Description
Pattern
Reads classified as belonging to any of the taxa
on the Kraken2 database.
*{fastq.gz}
Reads not classified to any of the taxa
on the Kraken2 database.
*{fastq.gz}
Kraken2 output file indicating the taxonomic assignment of
each input read
Kraken2 report containing stats about classified
and not classifed reads.
*.{report.txt}
