OMEROthon

6 May 2026, 10:00 → 8 May 2026, 16:30 Europe/Berlin

Interim Lecture Hall (Max Planck Institute for Evolutionary Biology)

Alejandro David Bonive Boscan (ECB), Carsten Fortmann-Grote (Max Planck Institute for Evolutionary Biology), Octavio Reyes-Matte (ECB)

Wednesday 6 May

Workshop

1 Welcome and Introductions

2 Image acquisition

• Image acquisition and acquisition metadata
  • Light parameters: exposure and transmission
  • Image parameters: pixel size and intensity
• Image formats
  • Brief Bio-Formats introduction

3 OMERO overview

• How to access OMERO on the web and on the desktop
• How to organize your images: Projects and Datasets
• Adding meaning to your images: Annotations with tags, key-value pairs, files, comments, and tables
• Searching and filtering in and across projects and datasets
• Loading images into jupyter, R Studio, ImageJ, and napari

4 Demo and Exercise: Loading image data into OMERO

12:30 Lunch

Workshop

5 Demo and Exercise: Image organization, annotations, search, and filter

6 Special topics and discussion

Thursday 7 May

Workshop

7 Recap

8 Image processing

11:00 Science and Career Seminar (Lecture Hall)

We'll take a break here to allow participants to attend the Science and Career Seminar

12:30 Lunch

Workshop: Exercises

9 Demo and Exercise: Image processing

10 Building publication ready figures with OMERO.figure

11 Visualization of image analysis results: OMERO.parade

12 Special topics and discussion

Friday 8 May

Workshop

13 Users present their data

14 Metadata spreadsheet hackathon

• Participants brainstorm and implement metadata templates in excel
• Presentation of results

12:30 Lunch

Workshop

15 Work on your own data

Participants work independently or in small teams to import, organize, annotate, analyse, and visualize their data

Workshop: Presentations and wrapup