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02 - Parallelization

Variant annotation: Parallelization - To speed up the annotation of large variant files, you can parallely align annotation modules and merge them again afterwards - Add additional input ports to the merge node (right click > Add ports > Input object (pickled)), then connect the nodes - Some nodes require pre-annotations of other nodes. In that case, make sure that the required nodes are aligned before the node. Example: 'Progtein features' requires pre-annotation with 'Protein_to_Genomic'. Make sure that 'Protein_to_Genomic' is run before 'Protein features'.
Protein_annotation
Python Script
Set up python env
Python Script
ClinVar
Python Script
VCF-Reader
File Reader
BFrameto_VCF
Python Script
Pathogenicityscores (all)
Python Script
Protein features
Python Script
VCF-WriterVariants
CSV Writer
VCF_to_BFrame (GRCh38)
Python Script

Nodes

Extensions

Links

Download

To use this workflow in KNIME, download it from the below URL and open it in KNIME:

Download Workflow
Created by: nadine
Created at: 2025-07-10
On NodePit since: 2025-10-27
Last update: 2025-10-30
Created with KNIME version: v5.8.0

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