histai/SPIDER-breast-model

SPIDER-Breast Model

Model Description

SPIDER-breast model is a deep learning model trained for patch-level pathology classification, specifically for breast. It is part of the SPIDER dataset initiative, which provides a large, high-quality, multi-organ pathology dataset with expert-annotated labels.

If you would like to support, sponsor, or obtain a commercial license for the SPIDER data and models, please contact us at [email protected].

Model Sources

• Repository: https://github.com/HistAI/SPIDER
• Paper: SPIDER: A Comprehensive Multi-Organ Supervised Pathology Dataset and Baseline Models

How to Get Started with the Model

Model works with 1120×1120 patches. Use the following code snippet to load and use the model:

from transformers import AutoModel, AutoProcessor
from PIL import Image

model = AutoModel.from_pretrained("histai/SPIDER-breast-model", trust_remote_code=True)
processor = AutoProcessor.from_pretrained("histai/SPIDER-breast-model", trust_remote_code=True)

image = Image.open("path_to_image.png")
inputs = processor(images=image, return_tensors="pt")
outputs = model(**inputs)
print(outputs.predicted_class_names)

Training Data

The model is trained on the SPIDER-breast dataset, a subset of the SPIDER dataset. The dataset includes:

Class	Total Patches
Adenosis	2899
Benign phyllodes tumor	4526
Ductal carcinoma in situ (high-grade)	5632
Ductal carcinoma in situ (low-grade)	5017
Fat	6286
Fibroadenoma	5243
Fibrocystic changes	5027
Fibrosis	6260
Invasive non-special type carcinoma	6142
Lipogranuloma	4941
Lobular invasive carcinoma	5102
Malignant phyllodes tumor	5271
Necrosis	5396
Normal ducts	4891
Normal lobules	5821
Sclerosing adenosis	3423
Typical ductal hyperplasia	5546
Vessels	5469

Total Counts:

• 92,892 central patches
• 984,924 total patches (including context patches)
• 921 total slides used for annotation

Results

Organ	Accuracy	Precision	F1 Score
Breast	0.902	0.896	0.897

License

The model is licensed under CC BY-NC 4.0 and is for research use only.

Citation

If you use this model, please cite the following:

@misc{nechaev2025spidercomprehensivemultiorgansupervised,
      title={SPIDER: A Comprehensive Multi-Organ Supervised Pathology Dataset and Baseline Models}, 
      author={Dmitry Nechaev and Alexey Pchelnikov and Ekaterina Ivanova},
      year={2025},
      eprint={2503.02876},
      archivePrefix={arXiv},
      primaryClass={eess.IV},
      url={https://arxiv.org/abs/2503.02876}, 
}

More Information

To explore other models and the SPIDER dataset you can visit the Hugging Face HistAI page or GitHub of the project.

Contacts

• Authors: Dmitry Nechaev, Alexey Pchelnikov, Ekaterina Ivanova
• Email: [email protected], [email protected], [email protected]