Tutorials & Resources

To help you getting started with image processing and data analysis, we’ve provided some basic, easy-to-follow seminars and tutorials. Originally created for lectures and courses, we are now sharing them here due to numerous requests from users of our facility.

In addition, be sure to also check out our guides section for additional step by step tutorials.

You can also find more complex tools and workflows on our github page.

In the Bioimage Analysis Lunch Seminar series we introduced the fundamental concepts of image processing and analysis. Due to your many requests and interest, we are also sharing the seminar materials here:

You'll find the seminar outline, along with additional handouts that provide step-by-step guidance on image visualization, basic segmentation, and analysis workflows. 

HS 2025

• September 19, 2025 -  Getting Started with Bioimage Analysis: Fiji/ImageJ
• October 3, 2025 -  Automating Your Workflow: Fiji/ImageJ Macros for Reproducible Analysis
• October 17, 2025 -  Machine Learning for Image Segmentation: A Practical Introduction to ilastik
• October 31, 2025 - Deep Learning Made Easy: Segmenting Cells with CellposeSegmentation with Cellpose  (PDF, 20 MB)
• November 14, 2025 -  3D/4D Image Visualization and Analysis Workflows with Imaris
• November 28, 2025 - Best Practices in Image Analysis: Sharing, Collaborating, and Getting Help with GitHub & image.sc 
• December 12, 2025 - Scaling Up Image Analysis: Managing Large Datasets with Fractal  

Past editions (FS 2025)

• Unlocking visualization in Python: Introduction to Napari LunchSeminar BiovisionCenter Education Napari zoom recording
• The BioImage Archive: Sharing Biological Imaging DataLunchSeminar BiovisionCenter Education  Bioimage Archive recording
• QuPath: Streamlined Whole-Slide Image Analysis  Qupath 2025 demo (PDF, 1 MB)  Qupath recording
• Bioimage.io: A Gateway to AI Models for Imaging 
• ZeroCostDL4Mic: Accessible Deep Learning for Microscopy 
• CellProfiler: Automated Image Analysis for Cell Biology 
• Image Restoration with Huygens: Deconvolution Demystified