Basic Guide to QuPath

When: 10/05/2023, 12-4pm

Where: Baring Court 112, St Luke's Campus, University of Exeter

Facilitator: Nicolás Verschueren van Rees

Installation Notes

It is possible to install QuPath on any plataform. You need to download the software from the Official website and follow the Installation instructions . After completing the instructions, open the program and try to open an image to make sure QuPath is installed properly.
Should you have any issues with the installation, please get in touch.

Goals of this QuPath tutorial

After completing this tutorial, the participants should be able to:

• Load images, create projects, get familiar with the different concepts of QuPath
• rename channels, create classes and make annotations
• Training a Pixel Classifier
• Run the cell detection algorithm
• Training a cell classifier
• Do simple scripts
• Export the relevant data

Resources

Here's a list of useful link to work with QuPath

• Official documentation, with nice tutorials
• a collection of scripts for QuPath
• Image Analysis forum with answers to practically everything!
• QuPath's official youtube channel, including several tutorials

Tutorial

Prerequisites

Make sure you have the following before attending the tutorial

• A computer with QuPath installed (see installation notes above)
• Battery or charger. The tutorial will take at least two hours
• Recommended: A mouse for the annotations
• A copy of the imageset in your hard drive. Link here

Tutorial slides

The slides of this tutorial are Here

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