MedMNIST v2-A large-scale lightweight benchmark for 2D and 3D biomedical image classification

We introduce MedMNIST v2, a large-scale MNIST-like dataset collection of standardized biomedical images, including 12 datasets for 2D and 6 datasets for 3D. All images are pre-processed into a small size of 28 x 28 (2D) or 28 x 28 x 28 (3D) with the corresponding classification labels so that no background knowledge is required for users. Covering primary data modalities in biomedical images, MedMNIST v2 is designed to perform classification on lightweight 2D and 3D images with various dataset scales (from 100 to 100,000) and diverse tasks (binary/multi-class, ordinal regression, and multi-label). The resulting dataset, consisting of 708,069 2D images and 9,998 3D images in total, could support numerous research/educational purposes in biomedical image analysis, computer vision, and machine learning. We benchmark several baseline methods on MedMNIST v2, including 2D/3D neural networks and open-source/commercial AutoML tools. The data and code are publicly available at .

Automated summary

We introduce MedMNIST v2, a large-scale dataset collection of standardized biomedical images with 12 datasets for 2D and 6 datasets for 3D. The dataset covers primary data modalities in biomedical images and is designed for lightweight classification tasks. It consists of 708,069 2D images and 9,998 3D images and can support various research purposes in biomedical image analysis, computer vision, and machine learning. We benchmarked baseline methods on MedMNIST v2, including neural networks and AutoML tools.