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Moore, J.* ; Basurto-Lozada, D.* ; Besson, S.* ; Bogovic, J.* ; Bragantini, J.* ; Brown, E.M.* ; Burel, J.M.* ; Casas Moreno, X.* ; de Medeiros, G.* ; Diel, E.E.* ; Gault, D.* ; Ghosh, S.S.* ; Gold, I.* ; Halchenko, Y.O.* ; Hartley, M.* ; Horsfall, D.* ; Keller, M.S.* ; Kittisopikul, M.* ; Kovács, G.* ; Küpcü Yoldaş, A.* ; Kyoda, K.* ; le Tournoulx de la Villegeorges, A.* ; Li, T.* ; Liberali, P.* ; Lindner, D.* ; Linkert, M.* ; Lüthi, J.* ; Maitin-Shepard, J.* ; Manz, T.* ; Marconato, L.* ; McCormick, M.* ; Lange, M.* ; Mohamed, K.* ; Moore, W.* ; Norlin, N.* ; Ouyang, W.* ; Özdemir, B.* ; Palla, G. ; Pape, C.* ; Pelkmans, L.* ; Pietzsch, T.* ; Preibisch, S.* ; Prete, M.* ; Rzepka, N.* ; Samee, S.* ; Schaub, N.* ; Sidky, H.* ; Solak, A.C.* ; Stirling, D.R.* ; Striebel, J.* ; Tischer, C.* ; Toloudis, D.* ; Virshup, I. ; Walczysko, P.* ; Watson, A.M.* ; Weisbart, E.* ; Wong, F.* ; Yamauchi, K.A.* ; Bayraktar, O.* ; Cimini, B.A.* ; Gehlenborg, N.* ; Haniffa, M.* ; Hotaling, N.* ; Onami, S.* ; Royer, L.A.* ; Saalfeld, S.* ; Stegle, O.* ; Theis, F.J. ; Swedlow, J.R.*

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

Histochem. Cell Biol. 160, 223-251 (2023)
Publ. Version/Full Text DOI PMC
Open Access Hybrid
Creative Commons Lizenzvertrag
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.
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Publication type Article: Journal article
Document type Scientific Article
Keywords Bioimaging ; Cloud ; Community ; Data ; Fair ; Format; Image Data; Platform
Language english
Publication Year 2023
HGF-reported in Year 2023
ISSN (print) / ISBN 0948-6143
e-ISSN 1432-119X
Journal Histochemistry and Cell Biology
Quellenangaben Volume: 160, Issue: 3, Pages: 223-251 Article Number: , Supplement: ,
Publisher Springer
Publishing Place One New York Plaza, Suite 4600, New York, Ny, United States
Reviewing status Peer reviewed
Institute(s) Institute of Computational Biology (ICB)
POF-Topic(s) 30205 - Bioengineering and Digital Health
Research field(s) Enabling and Novel Technologies
PSP Element(s) G-503800-001
Grants Wellcome Trust
DOI 10.1007/s00418-023-02209-1
WOS ID 001039590300001
Scopus ID 85164336665
PubMed ID 37428210
Erfassungsdatum 2023-10-06
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