Belgium
Teach your computer to see objects on bioimages with Ilastik
Date: 3 June 2026 @ 09:00 - 17:00
Language of instruction: English
Many experimental biologists and imaging facility users need to perform sophisticated segmentation of microscopy images, such as distinguishing between different cell structures or quantifying objects in dense, noisy backgrounds. Classical methods (thresholding, watershed, and manual annotation) often struggle with the variability and complexity of bioimage datasets. Ilastik provides an accessible machine-learning-based solution, allowing pixel- and object-level classification and integrates seamlessly with Fiji for downstream image processing, quantitative analysis, and batch processing across multiple images.
Keywords: hands-on, imaging
Venue: Leuven - Campus Gasthuisberg, Herestraat 49
City: Leuven
Country: Belgium
Postcode: 3000
Learning objectives:
- Apply pre-trained models from the BioImage Model Zoo and adapt them to their data
- Create and annotate pixel and object classifiers in Ilastik for simple segmentation and classification tasks
- Explain the principles of supervised machine learning for pixel and object classification in microscopy images
- Export Ilastik probability maps and segmentations for further analysis in Fiji
- Set up and use the Ilastik Fiji plugin for batch processing and automating pipelines for multi-image datasets
Organizer: VIB
Event types:
- Workshops and courses
Activity log
