Two Heads Are Enough: DualU-Net, a Fast and Efficient Architecture for Nuclei Instance Segmentation

David Anglada-Rotger, Berta Jansat, Ferran Marques, Montse Pardàs

Keywords: Cell Nuclei Classification, Cell Nuclei Segmentation, Digital Pathology, MultiTask Learning, Deep Learning, Computational Efficiency

Abstract: Accurate detection and classification of cell nuclei in histopathological images are critical for both clinical diagnostics and large-scale digital pathology workflows. In this work, we introduce DualU-Net, a fully convolutional, multi-task architecture designed to streamline nuclei classification and segmentation. Unlike the widely adopted three-decoder paradigm of HoVer-Net, DualU-Net employs only two output heads: a segmentation decoder that predicts pixel-wise classification maps and a detection decoder that estimates Gaussian-based centroid density maps. By leveraging these two outputs, our model effectively reconstructs instance-level segmentations. The proposed architecture results in significantly faster inference, reducing processing time by up to x5 compared to HoVer-Net, while achieving classification and detection performance comparable to State-of-the-Art models. Additionally, our approach demonstrates greater computational efficiency than CellViT and NuLite. We further show that DualU-Net is more robust to staining variations, a common challenge in digital pathology workflows. The model has been successfully deployed in clinical settings as part of the DigiPatICS initiative, operating across eight hospitals within the Institut Català de la Salut (ICS) network, highlighting the practical viability of DualU-Net as an efficient and scalable solution for nuclei segmentation and classification in real-world pathology applications. The code and pretrained model weights are publicly available on https://github.com/davidanglada/DualU-Net.

Primary Subject Area: Segmentation

Secondary Subject Area: Application: Histopathology

Paper Type: Methodological Development

Registration Requirement: Yes

Reproducibility: https://github.com/davidanglada/DualU-Net

Visa & Travel: Yes

Submission Number: 178