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arXiv · 2512.17517

PathBench-MIL: A Comprehensive AutoML and Benchmarking Framework for Multiple Instance Learning in Histopathology

Siemen Brussee·Pieter A. Valkema·Jurre A. J. Weijer·Thom Doeleman·Anne M. R. Schrader·Jesper Kers
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Abstract

We introduce PathBench-MIL, an open-source AutoML and benchmarking framework for multiple instance learning (MIL) in histopathology. The system automates end-to-end MIL pipeline construction, including preprocessing, feature extraction, and MIL-aggregation, and provides reproducible benchmarking of dozens of MIL models and feature extractors. PathBench-MIL integrates visualization tooling, a unified configuration system, and modular extensibility, enabling rapid experimentation and standardization across datasets and tasks. PathBench-MIL is publicly available at https://github.com/Sbrussee/PathBench-MIL

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Siemen Brussee, Pieter A. Valkema, Jurre A. J. Weijer, Thom Doeleman, Anne M. R. Schrader, Jesper Kers. 2025-12-19. PathBench-MIL: A Comprehensive AutoML and Benchmarking Framework for Multiple Instance Learning in Histopathology. https://arxiv.org/abs/2512.17517

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