<div dir="ltr">Yves-- I am familiar at least at some high level with the Dicom standard-- although as you point out it's a standard without a way to read or write images, and no images to even test on!<div><br></div><div style>
I am not sure how well the standard maps to the OMETIFF format-- but that would likely be the easiest way to go. I routinely convert images I scan on either an Aperio machine or an Olympus Nanozoomer into "just a tiff".... so presumably we could generate a tiff and then "reformat" it so that it meets the DICOM standard, including adding all of the necessary metadata. I don't have much experience with the library directly (I hate editing Java)... but since it's open source, and the properties and data model are fairly well developed, it would be a template to hack onto the current OMERO XML model and make it DICOM friendly...</div>
<div style><br></div><div style><br></div><div style>Just a thought. </div><div style><br></div><div style><br></div><div style><a href="http://loci.wisc.edu/bio-formats-format/ome-tiff">http://loci.wisc.edu/bio-formats-format/ome-tiff</a><br>
</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Sat, Mar 16, 2013 at 4:16 AM, Yves Sucaet <span dir="ltr"><<a href="mailto:sucaet@histogenex.com" target="_blank">sucaet@histogenex.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><font face="Default Sans Serif,Verdana,Arial,Helvetica,sans-serif">Hello<br><br>I'm currently attending the 20th international DICOM conference in Bangalore, India (<a href="http://www.dicomconference.org" target="_blank">http://www.dicomconference.org</a>). While most of the focus is on RX and topics like tele-radiology, there is at least a grassroot movement interested in pathology as well. <br>
<br>I've talked to several people here about the DICOM sup. 145 standard for Digital Pathology. One problem is that there are currently no libraries or viewers that can properly view this file format. Some groups (Siemens in particular; eSiePath) has done some hypothetical work with the format, assuming that one day files would become available. However, they don't have an actual parser either.<br>
<br>Part of the problem is that there are no publically DICOM sup. 145 sample files available. So my question here it two-fold:<br><br>* Does anybody have DICOM sup. 145 encoded whole slide images available and would they be willing to contribute them to the OpenSlide reference repository of WSI formats?<br>
* Is anybody else interested in seeing DICOM sup. 145 reading capabilities added to OpenSlide (or is working on that already)?<br><br>I'm willing to contribute resources to this effort, but I need to know if there is actual demand (and supply of sample files for that matter) for this first.<br>
<br>Kind regards,<br><br>Yves<br><br></font>
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<br></blockquote></div><br><br clear="all"><div><br></div>-- <br>David A Gutman, M.D. Ph.D.<br>Assistant Professor of Biomedical Informatics<br>Senior Research Scientist, Center for Comprehensive Informatics<br>Emory University School of Medicine
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