Epitope_Match_RD: HIV Epitope Matching Pipeline (v1.0.0)

Epitope_Match_RD is a Python-based bioinformatics pipeline for matching sequencing reads to predefined HIV epitopes referenced to HXB2 coordinates. The pipeline applies a configurable identity threshold (≥80% by default) to quantify epitope-level sequence similarity. The repository includes a SLURM array runner for high-throughput processing, curated epitope coordinate definitions, and reference sequence resources to enable reproducible analysis in HIV sequencing studies.