Abstract
Background and Objectives: Fluorescence-labeled cellular arbors provide readouts of neuronal and microglial morphology, but fine and weakly labeled processes are prone to fragmentation and false connections that bias skeleton-based measurements. We present MorphoBranch, a fine-structure-preserving, human-reviewable workbench for morphometry of branched cellular structures. Methods: MorphoBranch combines a deterministic Morphometry Engine with an LLM-assisted Refinement Engine. The Mor- phometry Engine implements an image-to-graph workflow integrating multiscale structural evidence extraction, hysteresis segmen- tation, evidence-constrained skeleton refinement, and graph-based morphometry. The Refinement Engine maps natural-language requests to registered actions for parameter adjustment, preview execution, metric reporting, and unsupported-request handling, while image processing and quantitative computation remain deterministic and reviewable. Results: MorphoBranch was evaluated on two public neuronal axon datasets, AxonMIP and AxonStack, and the in-house Cell- Morph dataset of microglial fluorescence images. It achieved the highest Skeleton F1 and clDice and the lowest length-estimation error among the evaluated methods on all three datasets, while also achieving the highest Dice and IoU on AxonMIP and Axon- Stack. Across 150 natural-language tasks, the Refinement Engine achieved a 94.0% end-to-end success rate. Conclusions: These results demonstrate that MorphoBranch provides a reproducible, human-reviewable workflow for mor- phometric analysis of branched cellular structures. It supports fine-structure-preserving quantification across neuronal axon and microglial fluorescence images while maintaining inspectable and reproducible analysis workflows.
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Cite this article
APA 7
Zhiying, S., Hanyi, L., Junyi, W., & Yangbo, J. (2026). MorphoBranch: A Fine-Structure-Preserving Workbench for Morphometric Analysis of Branched Cellular Structures. https://omanscience.com/en/articles/morphobranch-a-fine-structure-preserving-workbench-for-morphometric-analysis-of-branched-cellular-structures
MLA 9
Zhiying, Song, et al. "MorphoBranch: A Fine-Structure-Preserving Workbench for Morphometric Analysis of Branched Cellular Structures." https://omanscience.com/en/articles/morphobranch-a-fine-structure-preserving-workbench-for-morphometric-analysis-of-branched-cellular-structures.
Chicago (author–date)
Zhiying, Song, Ling Hanyi, Wu Junyi, and Jiang Yangbo. 2026. "MorphoBranch: A Fine-Structure-Preserving Workbench for Morphometric Analysis of Branched Cellular Structures." https://omanscience.com/en/articles/morphobranch-a-fine-structure-preserving-workbench-for-morphometric-analysis-of-branched-cellular-structures.
Harvard
Zhiying, S., Hanyi, L., Junyi, W. and Yangbo, J. (2026) 'MorphoBranch: A Fine-Structure-Preserving Workbench for Morphometric Analysis of Branched Cellular Structures', Available at: https://omanscience.com/en/articles/morphobranch-a-fine-structure-preserving-workbench-for-morphometric-analysis-of-branched-cellular-structures.
Vancouver
Zhiying S, Hanyi L, Junyi W, Yangbo J. MorphoBranch: A Fine-Structure-Preserving Workbench for Morphometric Analysis of Branched Cellular Structures. https://omanscience.com/en/articles/morphobranch-a-fine-structure-preserving-workbench-for-morphometric-analysis-of-branched-cellular-structures
IEEE
S. Zhiying, L. Hanyi, W. Junyi, and J. Yangbo, "MorphoBranch: A Fine-Structure-Preserving Workbench for Morphometric Analysis of Branched Cellular Structures," https://omanscience.com/en/articles/morphobranch-a-fine-structure-preserving-workbench-for-morphometric-analysis-of-branched-cellular-structures.