kraken2

Purpose

This component performs Kraken2 to assign taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.

Note

Software page: https://ccb.jhu.edu/software/kraken2/

Input/Output type

  • Input type: FastQ
  • Output type: txt

Note

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

Parameters

  • kraken2DB: Specifies kraken2 database. Default: minikraken2_v1_8GB (in path inside the

default container)

Published results

  • results/taxonomy/kraken2: Stores the results of the screening for each sample.

Published reports

None.

Default directives

  • container: flowcraft/kraken2
  • version: 2.0.7-1
  • cpus: 3
  • memory: 5GB (dynamically increased on retry)