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01 - Basic annotation workflow

Variant annotation: Workflow basics - To annotate variant data, read in your data using a VCF reader or MAF reader node, followed by the corresponding '_to_Bframe' node in the source file's reference genome. - Annotation nodes have a biomarker frame both as input and output, i.e. a JSON-based internal representation of the annotated variant data. Annotation modules can thus be freely sequentially aligned in an annotation workflow - Some modules rely on annotations of other modules (e.g. protein annotation). In that case, make sure to annotate with the required module first. Check out the required pre-annotations of a node by hovering over a node with the mouse. BFrame to_VCF VCF-Writer Variants Pathogenicity scores Functional regions VCF-Reader VCF _ to_ BFrame (GRCh38) Variant interpretation Conda Environment Protein_annotation Python Script CSV Writer Python Script Python Script File Reader Python Script Conda Environment Propagation Python Script Variant annotation: Workflow basics - To annotate variant data, read in your data using a VCF reader or MAF reader node, followed by the corresponding '_to_Bframe' node in the source file's reference genome. - Annotation nodes have a biomarker frame both as input and output, i.e. a JSON-based internal representation of the annotated variant data. Annotation modules can thus be freely sequentially aligned in an annotation workflow - Some modules rely on annotations of other modules (e.g. protein annotation). In that case, make sure to annotate with the required module first. Check out the required pre-annotations of a node by hovering over a node with the mouse. BFrame to_VCF VCF-Writer Variants Pathogenicity scores Functional regions VCF-Reader VCF _ to_ BFrame (GRCh38) Variant interpretation Conda Environment Protein_annotation Python Script CSV Writer Python Script Python Script File Reader Python Script Conda Environment Propagation 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: 2025-07-10
Last update: 2025-07-20
Created with KNIME version: v5.4.3

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