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Histochemistry and Cell BiologyBioinformaticsPeer-reviewed journal article

OME-Zarr: a cloud-optimized bioimaging file format with international community support

Josh MooreiD, Daniela Basurto-LozadaiD, Sébastien BessoniD, John BogoviciD, Jordão BragantiniiD, Eva M. BrowniD, Jean‐Marie BureliD, Xavier Casas MorenoiD, Gustavo de MedeirosiD, Erin E. DieliD, David Gault, Satrajit GhoshiD, Ilan GoldiD, Yaroslav O. HalchenkoiD, Matthew HartleyiD, Dave HorsfalliD, Mark S. KelleriD, Mark KittisopikuliD, Gábor KovácsiD, A. YoldaşiD, Koji KyodaiD, Albane le Tournoulx de la VillegeorgesiD, Tong LiiD, Prisca LiberaliiD, Dominik LindneriD, , Jason R. SwedlowiD

PDFDOIPreprint

Abstract

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.

Citations
129
FWCI
15.59
Field percentile
top 1%

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