kraken

Purpose

This component performs Kraken to assign taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.

Input/Output type

  • Input type: FastQ
  • Output type: None

Note

The default input parameter for fastq data is --fastq.

Parameters

  • krakenDB: Specifies kraken database. Default: minikraken_20171013_4GB (in path)

Published results

  • results/taxonomy/kraken: Stores the results of the screening for each sample.

Published reports

None.

Default directives

  • container: flowcraft/kraken
  • version: 1.0-0.1