Date: 17 October 2025 @ 09:00 - 17:00

Language of instruction: English

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This introductory QuPath course is designed for early-stage researchers—particularly 1st-year PhD students, postdocs, and research support staff—who are new to digital pathology and image analysis. As high-throughput imaging becomes increasingly central to biomedical research, the ability to efficiently analyze whole slide images (fluorescent and histochemical) is essential. This training provides a hands-on introduction to QuPath, a powerful open-source platform for bioimage analysis and specifically large 2D images such as slide scanner images. Participants will learn how to navigate the software, annotate images, perform cell segmentation, classify pixels and objects, and extract quantitative features. The course also introduces basic scripting for batch processing, enabling scalable workflows. By the end of the session, attendees will be equipped to independently analyze their own slide scanner images (histochemical and fluorescent) and integrate image analysis into their research pipelines.

Keywords: hands-on, imaging, software

Venue: Ghent - VIB/UGent FSVM II, Technologiepark 75

City: Zwijnaarde

Country: Belgium

Postcode: 9052

Learning objectives:

  • “Apply cell segmentation techniques to detect and quantify cellular structures in whole slide images”
  • “Classify tissue regions using pixel classification tools based on staining patterns and morphological features”
  • “Differentiate between object classification strategies and implement them to label biological structures”
  • “Execute basic QuPath scripts to automate repetitive tasks and batch process multiple images”
  • “Extract quantitative features from annotated regions to support downstream statistical analysis”
  • “Identify the core functionalities of QuPath including image management annotation tools and project organization”

Organizer: VIB

Event types:

  • Workshops and courses


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