Abstract

Bioimage analysis is the process of extracting meaningful information, such as quantitative data, from images in the life sciences. In this field, images are typically acquired using microscopy. Whether examining stained tissue sections in histology or tracking fluorescently labeled proteins in live cells, the fundamental goal remains consistent: turning pixels into numbers.

About This Material

This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.

Questions this will address

• Can I process images from experimental data in Galaxy? Where do I begin?
• How do I identify an image type and its metadata?
• What are the basic steps of a bioimage analysis workflow?
• Which workflows are best suited for my specific biological questions?
• How do I choose between different segmentation strategies?

Learning Objectives

• Classify your imaging data based on modality and dimensions (5D).
• Identify the correct entry point in Galaxy (Upload vs. Bio-Formats vs. OMERO).
• Apply pre-processing filters to improve data quality before analysis.
• Navigate the GTN ecosystem to find specialized follow-up tutorials.