Hierarchical Prototype-Memory Adaptation of SAM for Surgical Instrument Segmentation

Surgical instrument segmentation (SIS) is fundamental for computer-assisted surgery, where reliable instrument masks enable precise scene understanding and clinical assistance. Recently, adapting foundation models like the Segment Anything Model (SAM) to the surgical domain via prompt-learning has shown encouraging results. However, the performance of these adapted models under challenging surgical conditions is constrained by suboptimal adaptation mechanisms. Specifically, optimizing prompts or prototypes purely via downstream segmentation loss tends to cause them to degenerate into task-specific parameters rather than serving as persistent, stable category memory, thereby degrading their robustness against complex intraoperative variations. Moreover, routing multi-scale visual cues through a single prompt pathway creates a bottleneck that hinders effective scale-matched coupling. To address these limitations, we propose HPMA, a Hierarchical Prototype-Memory Adaptation framework for SAM. Specifically, HPMA constructs a frozen, multi-scale visual prototype memory bank from annotated surgical scenes and integrates it into SAM's feature space using lightweight adapters to preserve stable category evidence. To maximize the utility of multi-scale cues, we introduce a scale-matched coupling mechanism where global prototypes calibrate class-level prompt features, structural prototypes guide decoder object queries, and local prototypes align high-resolution feature maps through a local alignment objective. Extensive experiments on the public EndoVis2017 and EndoVis2018 datasets demonstrate that our approach achieves state-of-the-art performance, outperforming existing foundation model adaptation methods.

Toward Mask Annotation-Free Surgical Instrument Segmentation from Endoscopic Images Using Text-Prompted Segment Anything Model 3 (SAM3)

Surgical instrument segmentation is a fundamental task for computer-assisted interventions, yet most existing methods rely on pixel-level annotations or manual spatial prompts, which limit scalability and automation. The recently introduced Segment Anything Model 3 (SAM3) offers a pathway to annotation-free, automatic segmentation via text-based prompting; however, the instrument name as a text prompt could not be directly used due to a large domain gap. To overcome these limitations, we propose a two-stage framework that achieves instance-level segmentation without requiring ground truth masks or manual interaction. In the first stage, we leverage a natural-language-aligned generic prompt - "tool" - to produce binary masks using SAM3's zero-shot capability. In the second stage, these masks are extended to instance-level by integrating a vision-language model (Qwen) that is fine-tuned on SAM3-generated masked regions for instrument classification. We evaluate our approach on the EndoVis 2017 and 2018 datasets. Results show that, while our two-stage approach does not reach the performance of current fully supervised methods, it significantly outperforms the direct use of SAM3 for instance-level instrument segmentation with text prompts. Overall, our findings highlight both the limitations and potential of SAM3, suggesting a promising direction toward annotation-free surgical instrument segmentation.