Research Object Crate for Workflow for Illumina Quality Control and Filtering

### Workflow for Illumina Quality Control and Filtering _Multiple paired datasets will be merged into single paired dataset._ **Summary:** - FastQC on raw data files
- fastp for read quality trimming
- BBduk for phiX and (optional) rRNA filtering
- Kraken2 for taxonomic classification of reads (optional)
- BBmap for (contamination) filtering using given references (optional)
- FastQC on filtered (merged) data
Other UNLOCK workflows on WorkflowHub: https://workflowhub.eu/projects/16/workflows?view=default

**All tool CWL files and other workflows can be found here:**
https://gitlab.com/m-unlock/cwl **How to setup and use an UNLOCK workflow:**
https://m-unlock.gitlab.io/docs/setup/setup.html

Author

Bart Nijsse, Jasper Koehorst

License

Apache-2.0

Contents