FAQ

What is OMERO?

OMERO is a software platform for storing, managing, and sharing microscope images and metadata. From the microscope to publication, OMERO handles all your images in a secure central repository. You...

How to get started using HMS OMERO

There are three important steps in getting started using OMERO.

  1. Activate your OMERO login
  2. Download and install the necessary software
  3. Import data into OMERO

The following expands upon these steps.

Activate

...
What kinds of images and file types can be stored on OMERO?

OMERO uses the BioFormats library for translating and interpreting over 140 image file types. The specifics of what file types are supported is maintained on the OME BioFormats Supported Formats page...

Is there a size limit to what can be stored on OMERO?

The total amount of storage that OMERO can handle is determined by the size of the file system volume the server has access to on the HMS IT Isilon cluster. The current plan is to increase the OMERO...

What happens to the images that are imported into OMERO?

OMERO makes an exact copy of the original files and metadata files recognized by BioFormats and stores them in the OMERO managed repository. The data is structured exactly as it was found when...

How do you share images in OMERO?

The standard approach to sharing images is to make full copies of the image files and send them via ftp, email attachment, scp, or some other approach. With OMERO you have several far simpler options...

What's the advantage of using OMERO over standard file storage?

OMERO is a far more effective way to manage large collections of microscope image data and metadata. Images can be tagged and annotated with OMERO without affecting the original file. The annotations...

How much does using OMERO cost?

Currently OMERO is offered at no cost, just the same as standard storage. With billing for storage beginning in January 2017, the expectation is that OMERO storage will also be subject to billing like...

Who can use OMERO at HMS?

HMS OMERO is being offered to all on-quad researchers at Harvard Medical School engaged in pre-clinical research involving digital microscopy data. Collaborators with on-quad research projects and off...

What if OMERO.insight says I can't import a dataset or plate with more than 2,000 images?

OMERO.insight is not designed for importing datasets or plates with more than 2,000 images. Large imports can be performed with a command-line tool called the CLI, command line importer. The CLI is...