[ome-users] Whole slide image viewer

[Simon Li]

Hi Marios

There's an OMERO demo server which you're welcome to try, you can apply for an account here:
https://www.openmicroscopy.org/site/support/omero5.1/users/demo-server.html

It won't be as fast as having your own local installation, but it should give you an idea of what OMERO is capable of.

Simon


On 7 April 2015 at 04:48, Gavrielides, Marios A <Marios.Gavrielides at fda.hhs.gov<mailto:Marios.Gavrielides at fda.hhs.gov>> wrote:
Thanks Damir for your quick and very useful response. In fact, I was not aware of the capabilities of OMERO, since I only recently heard about OME (at the SPIE Medical Imaging 2015 Conference in Feb).  I will have to look into that as well as OpenSlide and the other references you provided.

Thanks again,
Marios



From: ome-users [mailto:ome-users-bounces at lists.openmicroscopy.org.uk<mailto:ome-users-bounces at lists.openmicroscopy.org.uk>] On Behalf Of Damir Sudar
Sent: Monday, April 06, 2015 10:43 PM
To: OME User Support List
Subject: Re: [ome-users] Whole slide image viewer

Hi Marios,

Since you are posting this message on ome-users, you are no doubt aware that OMERO can do much of what you suggest with the added benefit that it will be able to store all those images in an organized way. But if that added functionality isn't needed or desired, you may want to have a look at the OpenSlide project (http://openslide.org/) which in itself only provides the library to read all those WSI files and comes with a rudimentary viewer. But there are a few other projects that are based on OpenSlide that may provide some of the functionality you require. See references in: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3815078/
Also: http://imaging.cci.emory.edu/wiki/display/CAMIC/Home

Cheers,
- Damir


On Mon, Apr 6, 2015 at 5:17 PM, Gavrielides, Marios A <Marios.Gavrielides at fda.hhs.gov<mailto:Marios.Gavrielides at fda.hhs.gov>> wrote:
Hi all, I was wondering whether, as part of Bio-Formats, there is any open-source software to open and view whole slide images (WSI)of different file formats?  As many of you know, there are a number of vendor-specific formats such as .svs, .vsi, .bif, .ndpi, etc.  An WSI viewer that could open and display such formats along with capabilities for panning at different magnifications would be valuable.

Thanks in advance for your in input,
Marios

Marios A Gavrielides, Ph.D.
Division of Imaging, Diagnostics, and Software Reliability
Office of Science and Engineering Laboratories
Center for Devices and Radiological Health
Food and Drug Administration
(301) 796-2545<tel:%28301%29%20796-2545>

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Damir Sudar - Staff Scientist
Lawrence Berkeley Laboratory / Life Sciences Division
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