OMERO workshop

ELMI
Dublin, June 2018
Jean-Marie Burel, Petr Walczysko

Outline

• Intro: OME
• What is OMERO?
• Workshop: Using OMERO

A typical microscopy workflow

OME: Interoperability

OME: What We Do

OMERO is a server with clients

Other OMERO clients

• Visualization:
  • OMERO.iviewer
  • OMERO.figure
  • FPBioimage
  • CATMAID github.com/msphan/omero-catmaid/
  • ...
  
  
• Analysis:
  • ImageJ http://help.openmicroscopy.org/imagej.html
  • Cell Profiler OMERO: Accessing images
  • Orbit www.orbit.bio/omero-connection/
  • ...

Visualization Examples

Analysis Examples

OMERO from your own code

• Java
• Python
• Matlab
• JavaScript
• R

idr.openmicroscopy.org

Thank you

Today's Demo...

outreach.openmicroscopy.org

(Server located in Dundee)

openmicroscopy.org

Google: 'OMERO Demo'
to sign up for a demo account