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OME-Zarr: a cloud-optimized bioimaging file format with international community support
German BioImaging-Gesellschaft für Mikroskopie und Bildanalyse e.V., Constance, Germany.
KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.ORCID iD: 0000-0002-9583-9022
KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.ORCID iD: 0000-0002-0291-926x
Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK.
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Number of Authors: 692023 (English)In: Histochemistry and Cell Biology, ISSN 0948-6143, E-ISSN 1432-119X, Vol. 160, no 3, p. 223-251Article in journal (Refereed) Published
Abstract [en]

A growing community is constructing a next-generation file format (NGFF) for bioimaging to overcome problems of scalability and heterogeneity. Organized by the Open Microscopy Environment (OME), individuals and institutes across diverse modalities facing these problems have designed a format specification process (OME-NGFF) to address these needs. This paper brings together a wide range of those community members to describe the cloud-optimized format itself—OME-Zarr—along with tools and data resources available today to increase FAIR access and remove barriers in the scientific process. The current momentum offers an opportunity to unify a key component of the bioimaging domain—the file format that underlies so many personal, institutional, and global data management and analysis tasks.

Place, publisher, year, edition, pages
Springer Nature , 2023. Vol. 160, no 3, p. 223-251
Keywords [en]
Bioimaging, Cloud, Community, Data, FAIR, Format
National Category
Biophysics
Identifiers
URN: urn:nbn:se:kth:diva-338547DOI: 10.1007/s00418-023-02209-1ISI: 001039590300001PubMedID: 37428210Scopus ID: 2-s2.0-85164336665OAI: oai:DiVA.org:kth-338547DiVA, id: diva2:1810530
Note

QC 20231108

Available from: 2023-11-08 Created: 2023-11-08 Last updated: 2025-02-20Bibliographically approved

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Moreno, Xavier CasasOuyang, Wei

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CiteExportLink to record
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