无需训练的神经元追踪方法,显著减少人工校对时间。
Probe-EM: Targeted Neuron Tracing via Training-Free Semantic Verification

- 基于几何先验的探测-验证循环重建神经元形态
- 零样本语义验证使拼接错误率降低33.4%
- 集成至Neuroglancer,支持交互式人工校对
构建大规模高分辨率神经连接图谱是揭示脑功能结构基础的关键。然而,在处理千兆字节乃至拍字节级电子显微镜数据时,自动化重建算法固有的过度分割问题仍是主要瓶颈,需耗费人年级的人工校对。为减轻对标注数据的依赖并提升传统追踪方法的灵活性,我们提出一种无需训练的靶向神经元追踪框架。具体而言,引入基于骨架引导的启发式空间搜索范式,利用几何先验通过探测-验证循环迭代重构神经元形态。为实现鲁棒的零样本语义验证,进一步发展了基于基础模型NeuroSAM 2的维度感知语义验证策略,通过平面集成一致性解决切片内分裂,通过轴向时空传播解决切片间分裂。值得注意的是,我们将该流程集成至Neuroglancer可视化平台,实现了交互式人机协同校对系统。实验结果表明,所提方法优于监督基线,人工校对时间减少33.4%。源代码已公开于https://github.com/HeadLiuYun/Probe-EM。
原文摘要 · Abstract (English)
Establishing large-scale, high-resolution neural connectivity maps is fundamental to elucidating the structural basis of brain function. However, when processing terabyte- or petabyte-scale electron microscopy data, over-segmentation inherent in automated reconstruction algorithms remains a critical bottleneck, requiring extensive manual proofreading spanning person-years. To alleviate the heavy reliance on annotated data and the limited flexibility of conventional tracing methods, we propose a training-free, targeted neuron tracing framework. Specifically, we introduce a skeleton-guided Heuristic Spatial Search paradigm that leverages geometric priors to iteratively reconstruct neuronal morphologies through a probing-verification cycle. To achieve robust zero-shot semantic verification, we further develop a Dimension-Aware Semantic Verification strategy built upon the foundation model NeuroSAM 2. This strategy resolves intra-slice splits via Planar Ensemble Consensus and inter-slice splits via Axial Spatio-Temporal Propagation. Notably, we integrate the proposed workflow into the Neuroglancer visualization platform, enabling an interactive human-in-the-loop proofreading system. Experimental results demonstrate that the proposed method outperforms supervised baselines and reduces manual proofreading time by 33.4%. The source code is publicly available at https://github.com/HeadLiuYun/Probe-EM.
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