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研究生: 黃祈緯
Huang, Chi-Wei
論文名稱: 代理式全切片影像分析之區域探索與證據蒐集評估框架
An Evaluation Framework for Agentic Whole-Slide Image Analysis with Region Navigation and Evidence Acquisition
指導教授: 蔣榮先
Chiang, Jung-Hsien
學位類別: 碩士
Master
系所名稱: 電機資訊學院 - 資訊工程學系
Department of Computer Science and Information Engineering
論文出版年: 2026
畢業學年度: 114
語文別: 英文
論文頁數: 94
中文關鍵詞: 病理影像全切片影像代理式人工智慧統一評估框架區域探索評估感興趣區域分析
外文關鍵詞: Computational Pathology, Whole Slide Image, Agentic AI, Unified Evaluation Framework, Navigation Evaluation, ROI Analysis
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  • 近年來,代理式方法逐漸被應用於病理影像分析中,透過逐步選取感興趣區域、觀察局部影像內容,並整合多步驟資訊產生最終診斷結果。然而,現有評估方式多半仍以最終答案正確率為主,難以反映代理式方法在全切片影像中的探索行為、區域選擇品質與證據收集能力。尤其當不同代理式病理分析方法採用不同倍率、不同區域大小與不同探索策略時,僅以準確率進行比較,無法充分說明模型是否真正有效地定位病理相關區域,或是在未實際觀察關鍵區域的情況下,仍產生看似正確的答案。
    為了解決上述問題,本研究提出一套用於病理影像中代理式方法之統一評估框架。此框架將不同方法的推論過程轉換為一致的路徑表示,使各方法在區域選擇、觀察內容與最終回答上能被置於相同基準下進行比較。基於此表示方式,本研究進一步設計多個輔助評估指標,以補足僅依賴最終答案正確率所無法呈現的資訊,包括衡量早期定位能力、評估病理區域覆蓋與選擇品質,以及衡量探索成本。這些指標可用於分析模型是否能快速找到診斷相關區域、是否能充分覆蓋重要病理證據,以及是否在過程中產生過度探索的成本。
    實驗部分,本研究在多個病理任務上比較不同代理式病理分析方法,包含腫瘤偵測、腫瘤分類與腫瘤亞型分類。實驗結果顯示,不同方法在最終答案表現、早期定位能力、感興趣區域覆蓋程度與探索成本之間呈現不同取捨;單一準確率無法完整描述這些差異。部分方法能較早抵達病理相關區域,但未必能維持較高的區域選取精確度;另一些方法雖投入較高的探索成本,且在探索過程中具有較高的區域選取精確度,但這些優勢未必能轉化為更好的回答準確率。這些結果說明,代理式病理方法的能力應從多個面向共同評估,而非僅依賴最終預測結果。
    整體而言,本研究建立了一個相對標準化且可比較的基準評估框架,使具備多倍率探索與序列式區域觀察能力的代理式病理分析方法,能在一致基準下進行分析。此框架有助於揭示準確率以外的模型行為差異,並提供更完整的依據來理解不同方法在全切片探索、感興趣區域定位能力與探索效率之間的優劣與限制。

    In recent years, agentic approaches have gradually been introduced into computational pathology, where models iteratively select regions of interest (ROI), examine local image content, and integrate multi-step observations to generate final diagnostic predictions. However, existing evaluation protocols still primarily rely on final-answer accuracy, making it difficult to reflect the exploration behavior, region selection quality, and evidence collection capability of agentic methods in whole slide images (WSIs). In particular, when different methods employ different magnifications, region sizes, and exploration strategies, accuracy alone cannot adequately determine whether a model truly localizes pathology-relevant regions effectively, or instead produces seemingly correct answers without actually observing critical diagnostic areas.
    To address these limitations, this study proposes a unified navigation and evidence evaluation framework for agentic pathology methods. The proposed framework transforms the inference process of different methods into a standardized trajectory representation, allowing region selection, intermediate observations, and final predictions to be compared under a consistent evaluation setting. Based on this representation, we further introduce several complementary evaluation metrics to provide additional insights beyond final-answer accuracy, including Mean Reciprocal First Hit for measuring early localization ability, ROI Precision for evaluating pathological region coverage and selection quality, as well as Navigation Cost for quantifying exploration overhead. These metrics enable analysis of whether a model can rapidly identify diagnostically relevant regions, sufficiently cover important pathological evidence, and avoid excessive exploration during navigation.
    In the experimental section, this study compares different agentic pathology analysis methods across multiple pathology tasks, including tumor detection, tumor classification, and tumor subtype classification. The experimental results show that different methods exhibit distinct trade-offs among final-answer performance, early localization ability, region-of-interest coverage, and navigation cost; therefore, accuracy alone cannot fully characterize these differences. Some methods are able to reach pathology relevant regions earlier, but they do not necessarily maintain higher region selection precision. Other methods require higher navigation costs and show higher region selection precision during exploration, yet these advantages do not necessarily translate into better final answer accuracy. These findings indicate that the capability of agentic pathology methods should be evaluated from multiple perspectives rather than relying solely on final prediction results.
    Overall, this study establishes a relatively standardized and comparable benchmark framework for agentic pathology methods with multi-scale exploration and sequential region-observation capabilities. The proposed framework helps reveal behavioral differences beyond accuracy and provides a more comprehensive basis for analyzing the strengths and limitations of different methods in terms of WSI navigation, ROI localization, and exploration efficiency.

    中文摘要 i Abstract iii 誌謝 vi Contents viii List of Tables xi List of Figures xii 1 Introduction 1 1.1 Background 1 1.2 Motivation 2 1.3 Research Objectives 3 1.4 Thesis Organization 4 2 Literature Review 5 2.1 Traditional WSI Methods 5 2.2 Foundation Models for Computational Pathology 6 2.3 Histopathology Vision-Language Model 7 2.4 Agentic Methods in Pathology 8 2.5 Limitations of Existing Evaluation for Agentic Methods 10 3 Unified Navigation and Evidence Evaluation Framework 13 3.1 Unified Representation of Agentic Trajectories 13 3.2 Navigation Evaluation 16 3.2.1 Mean Reciprocal First Hit (MRFH) 18 3.2.2 ROI Hit Rate 20 3.2.3 ROI Precision 21 3.2.4 Navigation Cost 23 3.3 Evidence Sufficiency Evaluation 24 3.3.1 Fact Extraction 25 3.3.2 Reference Checklist Construction 27 3.3.3 Evidence Matching 29 4 Datasets and Tasks for Agentic Evaluation in Computational Pathology 33 4.1 Whole Slide Image Setting 33 4.2 Task Setup 34 4.2.1 Tumor Detection 34 4.2.2 Tumor Classification 35 4.2.3 Subtype Classification 35 4.3 Dataset Construction 35 5 Experimental Analysis of Agentic Pathology Methods 38 5.1 Experimental Design 38 5.2 Experimental Setup 40 5.2.1 Evaluated Methods 41 5.2.2 Evaluation Protocol 41 5.2.3 Implementation Details 42 5.3 Outcome-level Performance Comparison 44 5.4 Analyzing Navigation Behavior with the Proposed Metrics 45 5.4.1 Early localization and frequent localization are different abilities 46 5.4.2 High ROI overlap does not imply focused navigation 49 5.4.3 Exploration Cost Should Be Interpreted with Localization Quality 50 5.4.4 Summary of Navigation Findings 51 5.5 Analyzing Evidence Sufficiency with the Proposed Framework 52 5.5.1 Evidence Sufficiency Varies with Diagnostic Requirements 54 5.5.2 Spatial Localization Does Not Guarantee Diagnostic Evidence 55 5.5.3 Evidence Sufficiency and Answer Correctness Are Related but Not Equivalent 56 5.5.4 Post-hoc Accuracy under Evidence-Sufficient Filtering 57 5.5.5 Summary of Evidence Findings 59 5.6 Relationship Between Accuracy, Navigation, and Evidence Sufficiency 60 5.7 Summary 63 6 Conclusion and Future Works 66 6.1 Conclusion 66 6.2 Limitations 67 6.3 Future Works 69 1 Prompt Templates 71 A.1 Question Template Prompt 71 A.2 Atomic Pathology Fact Extraction Prompt 71 A.3 Reference Evidence Checklist Construction Prompt 72 A.4 Evidence Matching Prompt 74 REFERENCES 76

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