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QuPath is an open, powerful, flexible, extensible software platform for whole slide image analysis.
September 2020: New updates released
QuPath v0.2.3 is available here.
This is a minor release focused on fixing bugs; see the changelog for details.
June 2020: QuPath v0.2.0 now available!
The first Edinburgh release of QuPath is available here.
More than three years since v0.1.2 and a lot has changed.
Highlights include:
- Entirely new pixel classifier (link)
- Rewritten object classifiers (link)
- New methods of thresholding images (link)
- New & improved tools to create & adjust annotations (link)
- Much more support for multiplexed images (link)
- Updated object hierarchy (link)
- Bigger, better, smarter projects (link)
- Export images & annotations, including pyramidal OME-TIFFs (link)
- Many bug fixes, performance improvements… and a lot more (link)
Find the full documentation at https://qupath.readthedocs.io
Important! It is not recommended to mix different version of QuPath for analysis. If you started a project in v0.1.2, it is probably best to continue with that version - or start again with v0.2.0.
Other news
April 2020: QuPath webinar at NEUBIAS Academy
The QuPath webinar at NEUBIAS Academy is now on YouTube.
April 2020: From Samples to Knowledge workshop online
Videos from the recent QuPath workshop held at the La Jolla Institute for Immunology are now on YouTube
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Please remember to cite the QuPath paper if you use it in your work!
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Bankhead, P. et al. QuPath: Open source software for digital pathology image analysis. Scientific Reports (2017). https://doi.org/10.1038/s41598-017-17204-5
QuPath is developed at the University of Edinburgh.
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The software was originally created at the Centre for Cancer Research & Cell Biology at Queen’s University Belfast, as part of research projects funded by Invest Northern Ireland and Cancer Research UK.