# Patherea: Cell Detection and Classification for the 2020s

arXiv: https://arxiv.org/abs/2412.16425 · HTML: https://mlsanity.com/paper/2412.16425/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 28 of its 61 references that are in the map.
- First posted on arXiv 21 Dec 2024.

## Builds on (most cited first, 28 of 28)

- [Deep Residual Learning for Image Recognition](https://mlsanity.com/paper/1512.03385/) (2015)
- [Learning Transferable Visual Models From Natural Language Supervision](https://mlsanity.com/paper/2103.00020/) (2021)
- [An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale](https://mlsanity.com/paper/2010.11929/) (2020)
- [A Simple Framework for Contrastive Learning of Visual Representations](https://mlsanity.com/paper/2002.05709/) (2020)
- [DINOv2: Learning Robust Visual Features without Supervision](https://mlsanity.com/paper/2304.07193/) (2023)
- [End-to-End Object Detection with Transformers](https://mlsanity.com/paper/2005.12872/) (2020)
- [Masked Autoencoders Are Scalable Vision Learners](https://mlsanity.com/paper/2111.06377/) (2021)
- [Emerging Properties in Self-Supervised Vision Transformers](https://mlsanity.com/paper/2104.14294/) (2021)
- [Feature Pyramid Networks for Object Detection](https://mlsanity.com/paper/1612.03144/) (2016)
- [SimMIM: A Simple Framework for Masked Image Modeling](https://mlsanity.com/paper/2111.09886/) (2021)
- [Vision Transformer Adapter for Dense Predictions](https://mlsanity.com/paper/2205.08534/) (2022)
- [HoVer-Net: Simultaneous Segmentation and Classification of Nuclei in Multi-Tissue Histology Images](https://mlsanity.com/paper/1812.06499/) (2018)
- [Big Self-Supervised Models Advance Medical Image Classification](https://mlsanity.com/paper/2101.05224/) (2021)
- [CSRNet: Dilated Convolutional Neural Networks for Understanding the Highly Congested Scenes](https://mlsanity.com/paper/1802.10062/) (2018)
- [How Well Do Self-Supervised Models Transfer?](https://mlsanity.com/paper/2011.13377/) (2020)
- [Gland Segmentation in Colon Histology Images: The GlaS Challenge Contest](https://mlsanity.com/paper/1603.00275/) (2016)
- [Rethinking Counting and Localization in Crowds:A Purely Point-Based Framework](https://mlsanity.com/paper/2107.12746/) (2021)
- [NWPU-Crowd: A Large-Scale Benchmark for Crowd Counting and Localization](https://mlsanity.com/paper/2001.03360/) (2020)
- [Designing BERT for Convolutional Networks: Sparse and Hierarchical Masked Modeling](https://mlsanity.com/paper/2301.03580/) (2023)
- [Virchow: A Million-Slide Digital Pathology Foundation Model](https://mlsanity.com/paper/2309.07778/) (2023)
- [Lizard: A Large-Scale Dataset for Colonic Nuclear Instance Segmentation and Classification](https://mlsanity.com/paper/2108.11195/) (2021)
- [Battle of the Backbones: A Large-Scale Comparison of Pretrained Models across Computer Vision Tasks](https://mlsanity.com/paper/2310.19909/) (2023)
- [A Clinical Benchmark of Public Self-Supervised Pathology Foundation Models](https://mlsanity.com/paper/2407.06508/) (2024)
- [RudolfV: A Foundation Model by Pathologists for Pathologists](https://mlsanity.com/paper/2401.04079/) (2024)
- [CoNIC Challenge: Pushing the Frontiers of Nuclear Detection, Segmentation, Classification and Counting](https://mlsanity.com/paper/2303.06274/) (2023)
- [OCELOT: Overlapped Cell on Tissue Dataset for Histopathology](https://mlsanity.com/paper/2303.13110/) (2023)
- [Multi-Class Cell Detection Using Spatial Context Representation](https://mlsanity.com/paper/2110.04886/) (2021)
- [Affine-Consistent Transformer for Multi-Class Cell Nuclei Detection](https://mlsanity.com/paper/2310.14154/) (2023)

## Abstract (arXiv)

We present Patherea, a unified framework for point-based cell detection and classification that enables the development and fair evaluation of state-of-the-art methods. To support this, we introduce a large-scale dataset that replicates the clinical workflow for Ki-67 proliferation index estimation. Our method directly predicts cell locations and classes without relying on intermediate representations. It incorporates a hybrid Hungarian matching strategy for accurate point assignment and supports flexible backbones and training regimes, including recent pathology foundation models. Patherea achieves state-of-the-art performance on public datasets - Lizard, BRCA-M2C, and BCData - while highlighting performance saturation on these benchmarks. In contrast, our newly proposed Patherea dataset presents a significantly more challenging benchmark. Additionally, we identify and correct common errors in current evaluation protocols and provide an updated benchmarking utility for standardized assessment. The Patherea dataset and code are publicly available to facilitate further research and fair comparisons.