Creation and Utilization of OMERO Virtual Appliance For Network Based Storage of Microscopy Images

Shane Klumpp, Christopher Dubay

INTRODUCTION

Image Storage, archiving, and retrieval is of vital importance in todays largescientific community. Research Images need to be readily accessible in many locationsfor ease of access and use. OMERO (Open Microscopy Environment), acts as a securecentral repository for microscopy images. Working with OMERO allows you to accessimages from an easy to use application within Image J/FIJI, or on a web client allowingaccess to images from anywhere with internet access.

OMERO also allows for metadata analysis which is useful for multispectralimmunohistochemical images. Descriptors such as antibodies/image training used canbe tagged onto images for reproducibility.

Aim of Project

• Install OMERO virtual appliance and set up network capability within Virtual Box• Set up image central repository within OMERO virtual appliance for easy network

access to microscopy images within Providence domain (PHSOR)• Add Users and Groups within OMERO for users within EACRI• Installation of FIJI on User computers with OMERO plugin• Upload images onto OMERO with proper tagging

Set up

OMERO virtual appliance within Virtual Box

OMERO with networking at 10.244.184.228

Use

OMERO.insight login within FIJI or through

webclient Example page within OMERO

Future Directions

• OMERO virtual appliance image storage space is filled quickly because of large image file sizes: creating a full OMERO server could house many more images than an OMERO virtual appliance

• Installation of web tagger for autotagging

References and Downloads

• http://www.openmicroscopy.org/site/products/omero• https://imagej.nih.gov/ij/• https://fiji.sc/