(Tentative)

foundingGIDE BioImage Workshop and Hackathon

Workshop: OMERO Setup and Configuration for Imaging Facility Managers

Overview

Are you working with large volumes of (bio-)image data? Looking for a robust solution to manage, visualize, and analyze your datasets efficiently? Join our hands-on workshop focusing on the setup and configuration of OMERO, a powerful image data management platform.

OMERO, part of the Open Microscopy Environment (OME), provides researchers with a flexible system to handle, organize, and analyze imaging data. This workshop will guide you through the complete setup of OMERO on your local or cloud infrastructure and provide best practices for configuring OMERO for optimal performance.

What Will You Learn?

  • OMERO Setup: Step-by-step guidance on installing OMERO on local machines or institution cloud.
  • Server Configuration: Essential configuration tips, including hardware requirements, database setup, and security best practices.
  • User and Group Management: Learn how to manage users, set permissions, and organize imaging data for multi-user environments.
  • Data Import and Organization: Explore how OMERO handles image data imports, file formats, and efficient organization of large datasets with rich metadata.

Advanced Topics

For participants looking for more advanced topics, we’ll also cover:

  • OMERO Python API and Web development: Explore how to leverage the OMERO API for automating custom image management or analysis workflow.
  • OMERO.figure Application: A deep dive into the OMERO.figure tool for creating publication-ready figures directly from OMERO.
  • OMERO Integration with Image Analysis Software: Learn how OMERO connects with tools like ImageJ/Fiji, QuPath, CellProfiler, Cellpose, and StarDist for seamless image analysis workflows.

Who Should Attend?

This workshop is ideal for:

  • Imaging scientists and researchers dealing with large datasets.
  • Imaging core facility managers (non-IT specialist).

Workshop Details

  • Date: November 4th, 2024
  • Location: RIKEN Integrated Innovation Building (IIB), Kobe, Japan
  • Prerequisites: Basic understanding of imaging workflows.

Registration

Travel fund may be provided for several selected participants. Be sure to register early! [Registration Link]

For more information on OMERO, visit the OME website.