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/kraken2version
: 2.0.7-1cpus
: 3memory
: 5GB (dynamically increased on retry)