How Ground Truth Shapes Retrieval Scores: Evidence-Aware Evaluation of a Retrieval-Augmented Generation System for Breast Lesions· 乳腺病变管理文献中的检索系统评估

Purpose: To describe an evidence-aware retrieval evaluation protocol for a clinical retrieval-augmented generation (RAG) system over breast lesion management literature, addressing the dependence of retrieval scores on annotation coverage. Methods: An 18-document corpus and an 18-query development benchmark, with one Yes/No or WH-question per document, were used. Retrieval combined dense embeddings, BM25, and cross-encoder reranking. Chunk sizes of 128 to 1024 tokens, overlaps of 0 to 20%, and four retriever configurations were evaluated. Relevance was defined by evidence spans mapped to all containing chunks, treating overlapping chunks with equivalent evidence as relevant. Retrieval was evaluated using R-Precision, Recall@K, MRR, and nDCG@K. Separately, generation was assessed on a 512-t