Pangenome Graph Variant Calling Assessment
A comprehensive bioinformatics pipeline for evaluating variant calling performance using pangenome graphs.
This repository contains pipelines for assessing variant calling accuracy using pangenome graph-based approaches. The project focuses on comparing traditional linear reference-based variant calling with graph-based methods to evaluate improvements in variant detection.
├── AlignmentAndCallingPipeline/ # Main variant calling workflow
├── Comparison_by_hap.py # Variant comparison utilities
├── PlottingPipelines/ # Visualization and plotting tools
├── QCPipeline/ # Quality control workflows
├── LICENSE # GPL-3.0 license
└── README.md # This file
This project is part of genomics research initiatives in the UAE, focusing on:
- Improving variant calling accuracy in diverse populations
- Evaluating pangenome graph advantages over linear references
- Developing robust bioinformatics workflows for genomic analysis
Contributions are welcome! Please feel free to submit issues, feature requests, or pull requests.
For questions or collaborations, please open an issue or contact the repository maintainer.
- UAE genomics research community
- Contributors to pangenome graph tools and methodologies
- Open-source bioinformatics software developers
Note: This is an active research project. Documentation and tools are continuously being updated and improved.