OME-Zarr：一种得到国际社会支持的云优化生物成像文件格式。
OME-Zarr: a cloud-optimized bioimaging file format with international community support.
作者信息
Moore Josh, Basurto-Lozada Daniela, Besson Sébastien, Bogovic John, Bragantini Jordão, Brown Eva M, Burel Jean-Marie, Moreno Xavier Casas, de Medeiros Gustavo, Diel Erin E, Gault David, Ghosh Satrajit S, Gold Ilan, Halchenko Yaroslav O, Hartley Matthew, Horsfall Dave, Keller Mark S, Kittisopikul Mark, Kovacs Gabor, Yoldaş Aybüke Küpcü, Kyoda Koji, de la Villegeorges Albane le Tournoulx, Li Tong, Liberali Prisca, Lindner Dominik, Linkert Melissa, Lüthi Joel, Maitin-Shepard Jeremy, Manz Trevor, Marconato Luca, McCormick Matthew, Lange Merlin, Mohamed Khaled, Moore William, Norlin Nils, Ouyang Wei, Özdemir Bugra, Palla Giovanni, Pape Constantin, Pelkmans Lucas, Pietzsch Tobias, Preibisch Stephan, Prete Martin, Rzepka Norman, Samee Sameeul, Schaub Nicholas, Sidky Hythem, Solak Ahmet Can, Stirling David R, Striebel Jonathan, Tischer Christian, Toloudis Daniel, Virshup Isaac, Walczysko Petr, Watson Alan M, Weisbart Erin, Wong Frances, Yamauchi Kevin A, Bayraktar Omer, Cimini Beth A, Gehlenborg Nils, Haniffa Muzlifah, Hotaling Nathan, Onami Shuichi, Royer Loic A, Saalfeld Stephan, Stegle Oliver, Theis Fabian J, Swedlow Jason R
机构信息
German BioImaging - Gesellschaft für Mikroskopie und Bildanalyse e.V., Konstanz, Germany.
Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK.
出版信息
bioRxiv. 2023 May 7:2023.02.17.528834. doi: 10.1101/2023.02.17.528834.
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.
一个不断壮大的社区正在构建一种用于生物成像的下一代文件格式（NGFF），以克服可扩展性和异构性问题。由开放显微镜环境（OME）组织，面临这些问题的不同模式的个人和机构设计了一种格式规范流程（OME-NGFF）来满足这些需求。本文汇集了众多社区成员，描述了云优化格式本身——OME-Zarr，以及当前可用的工具和数据资源，以增加公平获取并消除科学过程中的障碍。当前的发展态势为统一生物成像领域的一个关键组成部分提供了契机——这种文件格式是众多个人、机构和全球数据管理与分析任务的基础。
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