QuPath: Quantitative Pathology & Bioimage Analysis Software
29 September, 10h -15h, lunch included
General context
This one-day workshop is aimed to use QuPath, an open-source software for bioimage processing and analysis of slide scanner images.
A dedicated time will be used to analyze some of the participants dataset, so please contact the organizers if you would like to bring your own data to process/analyze.
- Overview of QuPath: manage images, annotations, general concepts
- Cell Segmentation
- Pixel classification
- Feature extractions
- Object classification
- Basics of scripting in QuPath to batch process
This course is intended for researchers who are using or planning to use a slide scanner and would like to process and analyze their data.
None. Participants are requested to bring their own laptop, QuPath pre-installed.
QuPath
Trainers
Benjamin Pavie
Amanda Gonçalves
Amanda is a Microscopy Expert at the VIB Bioimaging Core-Gent, where since 2011, she has gained expertise in large sample imaging and quantification, from slide scanner to light sheet. She also has over 15 years of experience teaching science, both practical and theoretical, on the graduate and post graduate levels.
Program
QuPath basic
QuPath scripting + User dataset analysis
Practical info
29 September 2023
Ghent - VIB/UGent FSVM II
Technologiepark 75
9052 Zwijnaarde
Belgium
29 September 2023
Ghent - VIB/UGent FSVM II
From Ghent Sint-Pieters station, you can take a bus to Technologiepark. Please check Routeplanner De Lijn for schedules.
29 September 2023
Ghent - VIB/UGent FSVM II
Looking for a custom cycling route? Try the online cycling route planner to easily and quickly identify the fastest, safest and/or most scenic route to any destination in Ghent.
Cycling route planner
Shared bicycles:
Several providers are active in the area.
Take a look at their platforms:
- Indigo Weel Pro app
- Bluebike
- DOTT
- BOLT eBikes
- Donkey Republic
There are also some public bicycle pumps at the park.
29 September 2023
Ghent - VIB/UGent FSVM II
There is only one entrance to Technologiepark. At the entrance, please take a ticket - Parking is only allowed in regular parking spots (for instance in front of the building) and in the parking tower. Parking alongside the roads or in other places where there is no regular parking is prohibited.
29 September 2023
Ghent - VIB/UGent FSVM II
Room L4