QuPath

About

Open-source AI-powered bioimage analysis. Pathology image analysis and quantification.

• Interactive whole-slide image viewer with multi-resolution display and annotation layers.
• AI-based cell detection and segmentation using StarDist, CellPose, and custom deep learning models.
• Built-in machine learning classifiers (Random Forest, Support Vector Machines) for pixel classification.
• Batch processing automation via Groovy scripting and command-line interface.
• Export of measurements (area, intensity, shape) to CSV, Excel, and compatible formats for downstream statistics.
• Support for running StarDist and deep learning models in Python integration pipeline.
• Project management with case/group organization, metadata search, and image tile generation.
• TMA dearraying and core analysis with automated grid detection and measurement extraction.