ClinVAP

ClinVAP annotates and prioritizes somatic single nucleotide variants (SNVs) from VCF files to support clinical interpretation and identification of actionable targets in oncology.

Key Features:

• Automated annotation and prioritization: Integrates documented or predicted clinical effects and prioritizes somatic SNVs based on driver gene status and druggability.
• Reproducibility and scalability: Delivered as a fully containerized pipeline to enable reproducible, scalable analysis of large variant datasets.
• Interoperability: Accepts VCF input and is designed to interoperate with multiple data formats and downstream systems.
• Output formats: Produces JSON-based reports and supports rendering into user-defined templates for human-readable outputs.

Scientific Applications:

• NGS-based oncology variant interpretation: Supports interpretation of somatic variants derived from next-generation sequencing for cancer diagnosis and therapy planning.
• Personalized oncology: Aids prioritization of actionable targets by assessing driver genes and druggability for individualized treatment decisions.
• High-throughput somatic variant analysis: Enables large-scale analysis and prioritization of variant lists in research and clinical contexts.

Methodology:

Annotation: augment variant data with documented or predicted clinical effects; Filtering: remove non-relevant or low-confidence variants; Prioritization: rank variants by clinical significance focusing on driver gene status and druggability; Output: generate a JSON-based report.