NFDI4BIOIMAGE
Published February 2, 2024 | Version v1.0.1
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NFDI4Bioimage - TA3-Hackathon - UoC-2023 (Cologne-Hackathon-2023, GitHub repository)

Creators

  • 1. Department of Biology/Chemistry and Center for Cellular Nanoanalytics, University Osnabrück, Germany
  • 2. Center for Molecular Medicine Cologne and CECAD Research Center, University of Cologne, Cologne, Germany
  • 3. Center for Advanced Imaging, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany
  • 4. Single-cell Open Lab, German Cancer Research Center (DKFZ), Heidelberg, Germany
  • 5. Regional Computer Center (RRZK), University of Cologne, Cologne, Germany
  • 6. Regional Computing Centre (RRZK/ITCC), University of Cologne, Cologne, Germany
  • 7. Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany
  • 8. German BioImaging—Society for Microscopy and Image Analysis e.V., Constance, Germany
  • 9. Data Science and Management & Cluster of Excellence on Plant Sciences (CEPLAS), University of Cologne, Cologne, Germany
  • 10. Leibniz Institute for Neurobiology (LIN), Magdeburg, Germany
  • 11. Institute of Neuroscience and Medicine (INM-1), Forschungszentrum Jülich, Germany
  • 12. Computational Systems Biology, University of Kaiserslautern-Landau, Kaiserslautern, Germany
  • 13. Muenster Imaging Network, University of Muenster, Muenster, Germany

Description

This is the repository for documentation during the first NFDI4Bioimage - TA3-Hackathon - UoC-2023 (in short: Cologne Hackathon). Potential topics were identified in a preparatory meeting and covered with introductory talks. In a joint discussion and workflow as well as roadmap session, graphical workflows were created and tasks were defined. Eventually intensive work on the topics 'Interoperability', 'REMBI / Mapping', 'Neuroglancer (OMERO / zarr)' was conducted in groups and final reports summarized the outcome of this initial hackathon which also bridged from NFDI4Bioimage to DataPLANT on the topic of OMERO-ARC interoperability. From the beginning, there was a focus on documentation and on including use cases. The interoperability and REMBI topic served as preparatory work for a project at the 2nd de.NBI BioHackathon in Bielefeld: 'Towards OMERO and ARC interoperability for RDM-compliant bio-image data'. For the OMERO-ARC topic, we are thankful for the collaboration with DataPLANT (funded by the German Research Foundation (DFG) within the framework of the NFDI - project number: 442077441). We thank Heinrich Lukas Weil (DataPLANT) for participating and contributing as a guest, also providing the introductory talk on ARC. Furthermore, we acknowledge the contribution of Timo Mühlhaus in discussions during planning for the OMERO-ARC project and of Kevin Schneider in preparatory meetings on the OMERO-ARC project (both: DataPLANT). Funding allowing this event including enabling for organization, participation and finalizing this repository including the Zenodo submission: NFDI4Bioimage, funded by the German Research Foundation (DFG) within the framework of the NFDI-project number: 501864659; CEPLAS, Cluster of Excellence on Plant Sciences, funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy, EXC-2048/1'; CECAD, Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases, funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy - EXC 2030 - 390661388; CRC TRR341, Funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) - Project-ID 456082119.

Notes

If you use content of this repository, please cite it using these metadata. Authors are in alphabetical order!

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Additional details

Related works

Is supplement to
Software: https://github.com/NFDI4BIOIMAGE/Cologne-Hackathon-2023/tree/v1.0.1 (URL)

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