NeuroRefiner: Morphology-Aware Multi-Agent Refinement for 3D Fluorescence Microscopy Neuron Segmentation

Accurate 3D neuron segmentation in fluorescence microscopy is critical for neuroscience. However, the sparse and elongated morphology of neurons poses significant challenges to existing segmentation methods. These methods struggle to preserve both local details and global topology, leading to fragmented results. To address this, we propose NeuroRefiner, a multi-agent system that formalizes the human expert workflow involving iterative global observation and local editing. Specifically, NeuroRefiner comprises three collaborative agents dedicated to diagnosing topological errors, generating correction instructions, and validating refinement quality. To facilitate agent instruction-guided segmentation refinement, we propose TopoRefineNet, a dedicated 3D U-Net-based tool that leverages cross-modality feature fusion to generate refined masks. Through multi-round agent reasoning and voxel-level editing, NeuroRefiner produces topologically more accurate segmentations with enhanced interpretability. Experiments on the BigNeuron, CWMBS, and ZBFWB datasets demonstrate that NeuroRefiner outperforms state-of-the-art methods, notably achieving a 3.02% improvement in F1 score on the challenging ZBFWB dataset.

Probe-EM: Targeted Neuron Tracing via Training-Free Semantic Verification

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.

Symphony: A Cognitively-Inspired Multi-Agent System for Long-Video Understanding

Despite rapid developments and widespread applications of MLLM agents, they still struggle with long-form video understanding (LVU) tasks, which are characterized by high information density and extended temporal spans. Recent research on LVU agents demonstrates that simple task decomposition and collaboration mechanisms are insufficient for long-chain reasoning tasks. Moreover, directly reducing the time context through embedding-based retrieval may lose key information of complex problems. In this paper, we propose Symphony, a multi-agent system, to alleviate these limitations. By emulating human cognition patterns, Symphony decomposes LVU into fine-grained subtasks and incorporates a deep reasoning collaboration mechanism enhanced by reflection, effectively improving the reasoning capability. Additionally, Symphony provides a VLM-based grounding approach to analyze LVU tasks and assess the relevance of video segments, which significantly enhances the ability to locate complex problems with implicit intentions and large temporal spans. Experimental results show that Symphony achieves state-of-the-art performance on LVBench, LongVideoBench, VideoMME, and MLVU, with a 5.0% improvement over the prior state-of-the-art method on LVBench. Code is available at https://github.com/Haiyang0226/Symphony.