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# Official PanopMamba, image-level Panoptic Quality (*i*PQ), boundary-weighted Panoptic Quality (*w*PQ), and frequency-weighted Panoptic Quality (*fw*PQ)
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This is the source code for the paper, "PanopMamba: Vision State Space Modeling for Nuclei Panoptic Segmentation".
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This is the source code for the paper, "PanopMamba: Vision State Space Modeling for Nuclei Panoptic Segmentation", of which I am the first author. The paper is a preprint without the intention to publish and available to download from [arXiv](https://arxiv.org/pdf/2601.16631).
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## Model
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Our proposed model is built on Python package [MMSegmentation](https://pypi.org/project/mmsegmentation) v1.2.2 (released on 14 Dec 2023). The model configuration file is in the folder [./configs/panopmamba](https://github.com/mkang315/PanopMamba/tree/main/configs/panopmamba) and dataset configuration file is in [./mmseg/datasets](https://github.com/mkang315/PanopMamba/tree/main/mmseg/datasets). The pretrained MSVMamba checkpoint is provided in the [MSVMamba](https://github.com/YuHengsss/MSVMamba) repo. The modules are composed by models in [./mmseg/models](https://github.com/mkang315/PanopMamba/tree/main/mmseg/models). All the evaluation metrics, including the proposed *i*PQ, *w*PQ, and *fw*PQ, are in [./tools/evaluation](https://github.com/mkang315/PanopMamba/tree/main/tools/evaluation).
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## Evaluation
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We trained and evaluated PanopMamba on the Hematoxylin and Eosin (H\&E) stained datasets [MoNuSAC2020](https://monusac-2020.grand-challenge.org) and [NuInsSeg](https://doi.org/10.5281/zenodo.10518968). Here are some addtional experimental results.</br>
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## Referencing Guide
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Please cite the paper if using this repository. Here is a guide to referencing this work in various styles for formatting your references:</br>
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> Plain Text</br>
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- **IEEE Reference Style**</br>
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M. Kang, F. F. Ting, R. C.-W. Phan, Z. Ge, and C.-M. Ting, "Panopmamba: Vision state space modeling for nuclei panoptic segmentation," 2026, *arXiv:2601.16631*.</br>
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-**IEEE Full Name Reference Style**</br>
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M. Kang, F. F. Ting, R. C.-W. Phan, Z. Ge, and C.-M. Ting, "Panopmamba: Vision state space modeling for nuclei panoptic segmentation," arXiv:2601.16631, 2026.</br>
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<sup>**NOTE:** This is a modification to the standard IEEE Reference Style and used by most IEEE/CVF conferences, including **CVPR**, **ICCV**, and **WACV**, to render first names in the bibliography as "Firstname Lastname" rather than "F. Lastname" or "Lastname, F.".</sup></br>
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- **IJCAI Full Name-Year Variation**</br>
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\[Kang *et al.*, 2026\] Ming Kang, Fung Fung Ting, Raphaël C.-W. Phan, Zongyuan Ge, and Chee-Ming Ting. Panopmamba: Vision state space modeling for nuclei panoptic segmentation. *arXiv preprint arXiv:2601.16631*, 2026.</br>
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- **ACL Full Name-Year Variation**</br>
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Ming Kang, Fung Fung Ting, Raphaël C.-W. Phan, Zongyuan Ge, and Chee-Ming Ting. 2026. Panopmamba: Vision state space modeling for nuclei panoptic segmentation. *arXiv preprint arXiv:2601.16631*.</br>
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-**Nature Reference Style**</br>
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Kang, M., Ting, F. F., Phan, R. C.-W., Ge, Z. & Ting, C.-M. PanopMamba: vision state space modeling for nuclei panoptic segmentation. Preprint at https://arxiv.org/abs/2601.16631 (2026).</br>
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-**Springer Reference Style**</br>
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Kang, M., Ting, F.F., Phan, R.C.-W., Ge, Z., Ting, C.-M.: PanopMamba: vision state space modeling for nuclei panoptic segmentation (2026). arXiv preprint [arXiv:2601.16631](https://arxiv.org/abs/2601.16631)</br>
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-**Elsevier Numbered Style**</br>
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M. Kang, F.F. Ting, R.C.-W. Phan, Z. Ge, C.-M. Ting, PanopMamba: vision state space modeling for nuclei panoptic segmentation, arXiv preprint arXiv:2601.16631 (2026).</br>
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-**Elsevier Name–Date (Harvard) Style**</br>
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Kang, M., Ting, F.F., Phan, R.C.-W., Ge, Z., Ting, C.-M., 2026. PanopMamba: vision state space modeling for nuclei panoptic segmentation. arXiv preprint arXiv:2601.16631.</br>
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-**Elsevier Vancouver Style**</br>
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Kang M, Ting FF, Phan RC-W, Ge Z, Ting C-M. PanopMamba: vision state space modeling for nuclei panoptic segmentation. ArXiv \[Preprint\]. 2026 arXiv:2601.14019 \[posted 2026 Jan 24\]: \[10 p.\]. Available from: https://arxiv.org/abs/2601.14019 doi: https://doi.org/10.48550/arXiv.2601.16631</br>
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-**Elsevier Embellished Vancouver Style**</br>
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Kang M, Ting FF, Phan RC-W, Ge Z, Ting C-M. PanopMamba: vision state space modeling for nuclei panoptic segmentation. ArXiv \[Preprint\]. 2026 arXiv:2601.14019 \[posted 2026 Jan 24\]: \[10 p.\]. Available from: https://arxiv.org/abs/2601.14019 doi: https://doi.org/10.48550/arXiv.2601.16631</br>
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-**APA7 (Author–Date) Style**</br>
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Kang, M., Ting, F. F., Phan, R. C.-W., Ge, Z., & Ting, C.-M. (2026). *PanopMamba: Vision state space modeling for nuclei panoptic segmentation*. ArXiv, https://doi.org/10.48550/arXiv.2601.16631</br>
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- **AAAI (Author–Year) Variation**</br>
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Kang, M.; Ting, F. F.; Phan, R. C.-W.; Ge, Z.; and Ting, C.-M. 2026. PanopMamba: Vision State Space Modeling for Nuclei Panoptic Segmentation. arXiv:2601.16631.</br>
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- **ICML (Author–Year) Variation**</br>
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Kang, M., Ting, F. F., Phan, R. C.-W., Ge, Z., and Ting, C.-M. PanopMamba: Vision state space modeling for nuclei panoptic segmentation. *arXiv preprint arXiv:2601.16631*, 2026.</br>
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<sup>**NOTE:** For **NeurIPS** and **ICLR**, any reference/citation style is acceptable as long as it is used consistently. The sample of references in Formatting Instructions For NeurIPS almost follows APA7 (author–date) style and that in Formatting Instructions For ICLR Conference Submissions is similar to IJCAI full name-year variation.</sup>
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> BibTeX Format</br>
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```
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\begin{thebibliography}{1}
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\bibitem{bib1} M. Kang, R. C.-W. Phan, F. F. Ting, Z. Ge, and C.-M. Ting, ``Panopmamba: Vision state space modeling for nuclei panoptic segmentation,'' 2026, {\em arXiv:2601.16631}.
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\end{thebibliography}
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```
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```
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@aunpublished{Kang26Panopmamba,
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author = "Ming Kang and Fung Fung Ting and Rapha{\"e}l C.-W. Phan and Zongyuan Ge and Chee-Ming Ting",
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title = "Panopmamba: Vision state space modeling for nuclei panoptic segmentation",
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howpublished = "arXiv preprint",
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note = "arXiv:2601.16631",
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year = "2026"
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}
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```
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```
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@unpublished{Kang26Panopmamba,
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author = "Kang, Ming and Ting, Fung Fung and Phan, Rapha{\"e}l C.-W. and Ge, Zongyuan and Ting, Chee-Ming",
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title = "PanopMamba: vision state space modeling for nuclei panoptic segmentation",
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note = "{a}rXiv preprint arXiv:2601.16631",
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year = "2026",
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doi= "10.48550/arXiv.2601.16631",
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url = "https://doi.org/10.48550/arXiv.2601.16631"
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}
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```
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```
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@misc{Kang26Panopmamba,
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author = "Kang, Ming and Ting, Fung Fung and Phan, Rapha{\"e}l C.-W. and Ge, Zongyuan and Ting, Chee-Ming",
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title = "{PanopMamba: Vision State Space Modeling for Nuclei Panoptic Segmentation}",
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eprint= "2601.16631",
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archivePrefix= "arXiv",
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year = "2026"
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}
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```
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<sup>**NOTE:** Please remove some optional *BibTeX* fields/tags such as `series`, `volume`, `address`, `url`, and so on if the *LaTeX* compiler produces an error. Author names may be manually modified if not automatically abbreviated by the compiler under the control of the bibliography/reference style (i.e., .bst) file. The *BibTex* citation key may be `bib1`, `b1`, or `ref1` when references appear in numbered style in which they are cited. The quotation mark pair `""` in the field could be replaced by the brace `{}`, whereas the brace `{}` in the *BibTeX* field/tag `title` plays a role of keeping letters/characters/text original lower/uppercases or sentence/capitalized cases unchanged while using Springer Nature bibliography style files, for example, sn-nature.bst.</sup>
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## License
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PanopMamba is released under the MIT License. Please see the [LICENSE](https://github.com/mkang315/PanopMamba/blob/main/LICENSE) file for more information.
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