What is QuPath?

QuPath is open source software for bioimage analysis.

QuPath is often used for digital pathology applications because it offers a powerful set of tools for working with whole slide images - but it can be applied to lots of other kinds of image as well.

Features include:

  • Powerful annotation & visualization tools using a modern JavaFX interface

  • Built-in algorithms for common tasks, including cell and tissue detection

  • Interactive machine learning, both for object and pixel classification

  • Compatibility with other popular open tools, including ImageJ, OpenCV, Java Topology Suite and OMERO

  • Support for many image formats through Bio-Formats and OpenSlide, including whole slide images and multiplexed data

  • Groovy scripting for customization and deeper data interrogation

To find out more, check out the original publication introducing QuPath or dive into the tutorials to see some of what it can do.