OMERO: Open source scientific image data management platform

Jason Swedlow (Artist)

    Research output: Non-textual formSoftware

    Abstract

    The Java-based OMERO platform (http://www.openmicroscopy.org/site/products/omero) includes server and client applications that combine an image metadata database, a binary image data repository and high performance visualization and analysis. The current release of OMERO (4.4; http://openmicroscopy.org/site/support/omero4/downloads) includes a single mechanism for accessing image data of all types-- regardless of original file format-- via Java, C/C++ and Python and a variety of applications and environments (e.g., ImageJ, Matlab and CellProfiler). Support for large images from digital pathology is now included. This version of OMERO includes a number of new functions, including SSL-based secure access, distributed compute facility, filesystem access for OMERO clients, and a scripting facility for image processing. A permissions system controls access to data within OMERO and enables sharing of data with users in a specific group or even publishing of image data to the worldwide community. Using these facilities, OMERO and Bio-Formats run the JCB DataViewer (http://jcb-dataviewer.rupress.org/), the world’s first on-line scientific image publishing system and several other institutional image data repositories. All OME software is open source and available at http://openmicroscopy.org.
    Original languageEnglish
    Place of PublicationDundee
    PublisherOpen Microscopy Environment
    Media of outputOnline
    Publication statusPublished - 2012

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