Research Object Crate for Short read quality control, trimming and contamination filter

**Workflow for short paired end reads quality control, trimming and filtering.**
Multiple paired datasets will be merged into single paired dataset.
Summary: - Sequali QC on raw data files
- fastp for read quality trimming
- BBduk for phiX and rRNA filtering (optional)
- Filter human reads using Hostile (optional)
- Custom read filtering using Hostile (optional)
- Sequali QC 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 at:**
https://gitlab.com/m-unlock/cwl **How to setup and use an UNLOCK workflow:**
https://docs.m-unlock.nl/docs/workflows/setup.html

Author

Bart Nijsse, Jasper Koehorst, Changlin Ke

License

Apache-2.0

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