OMERO and Commercial tool

Hi,
our histology imaging facility will use https://www.visiopharm.com/ for deep learning on images. they asked me about the rapid solution to use images from OMERO.
Any idea, please?

Thank you

Nabila

Hello Nabila:

Thank you for your question. Firstly, let me briefly introduce Glencoe Software (https://www.openmicroscopy.org/commercial-partners/). One of the many things we do on behalf of OME, is build relationships with commercial entities and OME software such as OMERO and Bio-Formats. Visiopharm is one such entity.

As far as interactions between OME software and Visiopharm are concerned let me start by saying that Visiopharm has first class support for OME-TIFF, including pyramidal OME-TIFF. Utilising Bio-Formats and work we have recently released
(https://glencoesoftware.com/blog/2019/12/09/converting-whole-slide-images-to-OME-TIFF.html)
you can use any whole slide image you have in OMERO via OME-TIFF with Visiopharm. Visiopharm also has support for a large number of whole slide imaging proprietary file formats. I would strongly encourage you to talk to them about your requirements.

We have also worked with a number of our customers on supporting the Visiopharm MLD annotation format within our suite of ROI conversion tools (https://github.com/glencoesoftware/ome-omero-roitool). These tools support bidirectional workflows involving annotations between OMERO and other tools via OME-XML.

If you are interested in discussing any of this in more detail please do get in touch:

Hope this helps!

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