Release Notes
We are excited to announce the initial release of PHI (Pangenome-based Haplotype Inference) v1.0. This version provides a robust framework for reconstructing haplotypes from low-coverage sequencing data using a haplotype-aware pangenome graph.
Key Features
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Dual Integer Programming Methods:
- Integer Linear Programming (ILP)
- Integer Quadratic Programming (IQP)
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Flexible Pangenome Graph Support:
- GFA v1.1:
- Variant Call Format (VCF)
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Gurobi Optimizer (v11.0.2) Integration