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German BioImaging

German BioImaging – Gesellschaft für Mikroskopie und Bildanalyse e.V. (GerBI-GMB e.V.) unites scientists, students, core facilities, and industry partners around key topics in microscopy, image analysis, and research data management. We are dedicated to shaping the bioimaging landscape by actively participating in various national and international research projects, and supporting our members with teaching and training in Germany and beyond.

The Research Software Engineering unit supports GerBI mission through development of open-source software and standards for microscopy data, and a core contributor in the Open Microscopy Environment(OME) community, particularly in the development of OME-Zarr, a next-generation file format (NGFF).

Resources:

Popular repositories Loading

  1. omero-rdf omero-rdf Public

    A plugin for exporting RDF from OMERO

    Python 16 13

  2. RDM4mic RDM4mic Public

    RDM4mic working group - research data management for microscopy data

    9 1

  3. omero_fileserver-import omero_fileserver-import Public

    Script to import images from fileserver mounted on an OMERO server

    Jupyter Notebook 8 2

  4. webtagging webtagging Public archive

    Extensions to OMERO.web to enhance tagging and searching

    JavaScript 4 5

  5. oztest oztest Public

    WIP: Conformance test cases and tools for OME-Zarr

    Python 4

  6. nfdi4bioimage nfdi4bioimage Public

    3

Repositories

Showing 10 of 40 repositories
  • ome-zarr-resources Public

    Status dashboard for OME-Zarr resources

    German-BioImaging/ome-zarr-resources's past year of commit activity
    Python 0 0 0 0 Updated Sep 16, 2026
  • oztest Public

    WIP: Conformance test cases and tools for OME-Zarr

    German-BioImaging/oztest's past year of commit activity
    Python 4 0 3 2 Updated Sep 11, 2026
  • ome-zarr-acknowledgments Public

    People that have contributed to OME-Zarr at some point

    German-BioImaging/ome-zarr-acknowledgments's past year of commit activity
    HTML 3 11 12 0 Updated Sep 10, 2026
  • German-BioImaging/RDM4mic.github.io's past year of commit activity
    0 0 0 0 Updated Aug 28, 2026
  • omero-ontop-mappings Public Forked from andrawaag/omero-ontop-mappings

    ONTOP module for querying OMERO with SPARQL

    German-BioImaging/omero-ontop-mappings's past year of commit activity
    Shell 2 BSD-3-Clause 4 17 2 Updated Jul 31, 2026
  • omero_fileserver-import Public

    Script to import images from fileserver mounted on an OMERO server

    German-BioImaging/omero_fileserver-import's past year of commit activity
    Jupyter Notebook 8 GPL-3.0 2 1 1 Updated Jul 16, 2026
  • omero-registry Public

    A public registry of OMERO instances. (DRAFT)

    German-BioImaging/omero-registry's past year of commit activity
    0 0 0 0 Updated Jul 2, 2026
  • sparql-examples Public Forked from sib-swiss/sparql-examples

    A set of SPARQL examples that are used in different GerBI resources

    German-BioImaging/sparql-examples's past year of commit activity
    HTML 1 36 0 0 Updated May 28, 2026
  • idr_study_crates Public

    Experimenting with RO-Crates for IDR metadata

    German-BioImaging/idr_study_crates's past year of commit activity
    Python 1 0 1 0 Updated Apr 22, 2026
  • nfdi-formats Public
    German-BioImaging/nfdi-formats's past year of commit activity
    Python 0 CC0-1.0 1 2 0 Updated Apr 22, 2026