Geropathology Imaging - Part of the The Jackson Laboratory Shock Center of Excellence in the Basic Biology of Aging

Annotating In QuPath

This page will walk you through Annotating  slides in Qupath.   If you have not installed these programs you can get directions to do that here Required Software there are also links to the manuals and tutorials that both groups provide.  We have also provided specific directions on how to import files from Omero to Qupath.  We are assuming here that you have Qupath installed and Images loaded.   

Open QuPath Project

Click on Image you want to annotate

Select Image Type 

Our Classifiers use Brightfield (H&E)


Select Move tool 

Move and Zoom Region/Tissue of interest into view

Select Wand Tool

Select Region of Interest

Select Annotations

Ensure  the labels you want are in list

Add class if needed 

Select Outline in list

Assign class