histolab

SUMMARY

What it does

Histolab is a Python library for processing whole slide images (WSI) in digital pathology. It automates tissue detection, extracts informative tiles from gigapixel images, and prepares datasets for deep learning pipelines. The library handles multiple WSI formats, implements sophisticated tissue segmentation, and provides flexible tile extraction strategies. Core capabilities include slide management, tissue detection and masks, tile extraction (random, grid, score-based), filters and preprocessing, stain normalization (Reinhard and Macenko), and visualization. It requires Python 3.8–3.11, OpenSlide system libraries, and Linux or macOS. The skill is part of Scientific Agent Skills by K-Dense and includes detailed reference documentation.