OME-XML (Open Microscopy Environment XML)

<!DOCTYPE html> <html lang="en"> <head> <meta charset="utf-8"> <title>OME-XML (Open Microscopy Environment XML)</title> <meta name="viewport" content="width=device-width, initial-scale=1.0"> <meta name="description" content="An output of the Research Data Alliance Metadata Standards Directory Working Group"> <link href="/metadata-directory/css/bootstrap.min.css" rel="stylesheet"> <link href="/metadata-directory/css/hc.css" rel="stylesheet"> <link href="http://netdna.bootstrapcdn.com/font-awesome/4.0.3/css/font-awesome.css" rel="stylesheet">   <script> (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){ (i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o), m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m) })(window,document,'script','//www.google-analytics.com/analytics.js','ga'); ga('create', 'UA-59116315-1', 'auto'); ga('send', 'pageview'); </script> </head> <body> <div class="nav-toggle"><i class="fa fa-bars fa-2x"></i>Metadata Standards Directory</div> <div id = "wrapper">  <div class="navbar navbar-default" role="navigation"> <div class="container"> <div class="navbar-header"> <button type="button" class="navbar-toggle" data-toggle="collapse" data-target=".navbar-collapse"> <span class="sr-only">Toggle navigation</span> <span class="icon-bar"></span> <span class="icon-bar"></span> <span class="icon-bar"></span> </button> <p class="navbar-brand">Metadata Standards Directory</p> </div> <div class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/standards/ome-xml-open-microscopy-environment-xml.md">Edit this page</a> </li> <li><a href="/metadata-directory/standards/">View the standards</a></li> <li><a href="/metadata-directory/extensions/">View the extensions</a></li> <li><a href="/metadata-directory/tools/">View the tools</a></li> <li><a href="/metadata-directory/use_cases/">View the use cases</a></li> <li><a href="/metadata-directory/subjects/">Browse by subject areas</a></li>  </ul> </div> </div> </div>  <div id="sidebar-wrapper"> <ul class="sidebar-nav"> <li class="sidebar-brand"> <h1 class="brand"><a href="/metadata-directory/">Metadata Standards Directory</a></h1> </li> <hr />  <li><a href="/metadata-directory/standards/">View the standards</a></li> <li><a href="/metadata-directory/extensions/">View the extensions</a></li> <li><a href="/metadata-directory/tools/">View the tools</a></li> <li><a href="/metadata-directory/use_cases/">View the use cases</a></li> <li><a href="/metadata-directory/subjects/">Browse by subject areas</a></li> <hr /> <li><a href="/metadata-directory/about/">How contributing worked</a></li>  <hr /> <div id="social-wrapper"> <li> <a href="http://www.github.com/rd-alliance/metadata-directory"><i class="fa fa-github-square"></i> github</a> </li> <li> <a href="https://twitter.com/resdatall"><i class="fa fa-twitter-square"></i> @twitter</a></li> <li> <a href="http://www.linkedin.com/profile/view?id=272003890&trk=nav_responsive_tab_profile"><i class="fa fa-linkedin-square"></i> linkedin</a> </li> <li> <a href="https://www.facebook.com/pages/Research-Data-Alliance/459608890798924"><i class="fa fa-facebook-square"></i> facebook</a></li> </div> </ul> </div>  <div class="container"> <div class="alert alert-warning" role="alert"> <div class="media"> <div class="pull-left"> <span class="fa fa-exclamation-triangle fa-2x"></span> </div> <div class="media-body"> This directory has been superseded by the <a href="https://rdamsc.bath.ac.uk/">RDA Metadata Standards Catalog</a> and is no longer maintained. </div> </div> </div> <h1>OME-XML (Open Microscopy Environment XML)</h1> <p><p><a href="http://www.openmicroscopy.org/Schemas/">OME-XML</a> is a vendor-neutral file format for biological image data, with an emphasis on metadata supporting light microscopy. It can be used as a data file format in its own right, or as a way of encoding metadata within a TIFF or BigTIFF file (for which purpose there is the <a href="http://www.openmicroscopy.org/site/support/file-formats/ome-tiff/ome-tiff-specification">OME-TIFF</a> specification).</p><p>The standard is maintained by the Open Microscopy Environment Consortium, and was last updated in June 2012.</p></p> <h2>Summary <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/standards/ome-xml-open-microscopy-environment-xml.md" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Edit</a> </h2> <dl> <dt>Standard Website</dt> <dd><a href="http://www.openmicroscopy.org/site/support/file-formats">http://www.openmicroscopy.org/site/support/file-formats</a></dd> <dt>Specification</dt> <dd><a href="http://www.openmicroscopy.org/Schemas/">http://www.openmicroscopy.org/Schemas/</a></dd> <dt>Subjects</dt> <dd> <a href="/metadata-directory/subjects/life-sciences.html">Life Sciences</a> </dd> <dt>Disciplines</dt> <dd> <a href="/metadata-directory/subjects/animal-pathology.html">Animal pathology</a> </dd> <dd> <a href="/metadata-directory/subjects/animal-physiology.html">Animal physiology</a> </dd> <dd> <a href="/metadata-directory/subjects/cell-biology.html">Cell Biology</a> </dd> <dd> <a href="/metadata-directory/subjects/plant-pathology.html">Plant pathology</a> </dd> <dd> <a href="/metadata-directory/subjects/plant-physiology.html">Plant physiology</a> </dd> </dl> <h2>Extensions <a href="../extensions/add.html" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Add</a> </h2> <dl> <dt> <a href="http://www.openmicroscopy.org/site/support/file-formats/ome-tiff">OME-TIFF (Open Microscopy Environment TIFF)</a> <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/extensions/ome-tiff-open-microscopy-environment-tiff.md" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Edit</a> </dt> <dd><p>A specification of how to embed <a href="../standards/ome-xml-open-microscopy-environment-xml.html">OME-XML</a> metadata within a <a href="http://partners.adobe.com/public/developer/tiff/">TIFF</a> or <a href="http://bigtiff.org/">BigTIFF</a> image file.</p></dd> </dl> <h2>Tools <a href="../tools/add.html" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Add</a> </h2> <dl> <dt> <a href="http://www.openmicroscopy.org/site/products/bio-formats">Bio-Formats</a> <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/tools/bio-formats.md" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Edit</a> </dt> <dd><p>Bio-Formats reads proprietary microscopy image data and metadata, and converts them to OME-TIFF, a combination of TIFF and <a href="../standards/ome-xml-open-microscopy-environment-xml.html">OME-XML</a>.</p></dd> <dt> <a href="http://fiji.sc/Fiji">Fiji</a> <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/tools/fiji.md" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Edit</a> </dt> <dd><p><a href="http://fiji.sc/Fiji">Fiji</a> is an image processing package that supports the <a href="http://www.openmicroscopy.org/site/support/ome-model/">OME data model</a> for images </p></dd> <dt> <a href="http://www.openmicroscopy.org/site/products/omero">OMERO</a> <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/tools/omero.md" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Edit</a> </dt> <dd><p>Repository software for organising, viewing, analysing and sharing biological microscopy images. It supports proprietary file formats but normalises to OME-TIFF/<a href="../standards/ome-xml-open-microscopy-environment-xml.html">OME-XML</a>.</p></dd> </dl> <h2>Use Cases <a href="../use_cases/add.html" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Add</a> </h2> <dl> <dt> <a href="http://www.cellimagelibrary.org/">The Cell: An Image Library</a> <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/use_cases/cell-image-library.md" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Edit</a> </dt> <dd><p>A resource database of images, videos, and animations of cells, capturing a wide diversity of organisms, cell types, and cellular processes. Its native metadata format for images is <a href="../standards/ome-xml-open-microscopy-environment-xml.html">OME-XML</a>.</p></dd> <dt> <a href="http://jcb-dataviewer.rupress.org/">JCB Data Viewer</a> <a href="https://github.com/rd-alliance/metadata-directory/edit/gh-pages/use_cases/jcb-data-viewer.md" class="btn btn-default btn-xs" role="button"> <span class="glyphicon glyphicon-edit"></span> Edit</a> </dt> <dd><p>A repository for viewing and analysing multi-dimensional image data associated with articles published in The Journal of Cell Biology. Its native metadata format is <a href="../standards/ome-xml-open-microscopy-environment-xml.html">OME-XML</a>.</p></dd> </dl> <hr /> <footer> The RDA Metadata Standards Directory was maintained by <a href="https://github.com/alex-ball">Alex Ball</a>, <a href="https://github.com/gugek">Sean Chen</a>, and <a href="https://github.com/katealderete">Kate Anne Alderete</a>. <br> This site uses the <a href="https://github.com/arnp/herring-cove">Herring Cove</a> theme by <a href="https://github.com/dustin-allen">Dustin Allen</a>. <br> This page was generated by <a href="http://pages.github.com">GitHub Pages</a>. </footer> </div>  <script src="/metadata-directory/js/jquery-3.6.4.min.js"></script> <script src="/metadata-directory/js/bootstrap.min.js"></script> <script src="/metadata-directory/js/hc.js"></script> </body> </html>

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OME-XML (Open Microscopy Environment XML)