OME-NGFF: a next-generation file format for expanding bioimaging data-access strategies

The rapid pace of innovation in biological imaging and the diversity of its applications have prevented the establishment of a community-agreed standardized data format. We propose that complementing established open formats such as OME-TIFF and HDF5 with a next-generation file format such as Zarr w...

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Bibliographic Details
Published inNature methods Vol. 18; no. 12; pp. 1496 - 1498
Main Authors Moore, Josh, Allan, Chris, Besson, Sébastien, Burel, Jean-Marie, Diel, Erin, Gault, David, Kozlowski, Kevin, Lindner, Dominik, Linkert, Melissa, Manz, Trevor, Moore, Will, Pape, Constantin, Tischer, Christian, Swedlow, Jason R.
Format Journal Article
LanguageEnglish
Published New York Nature Publishing Group US 01.12.2021
Nature Publishing Group
Subjects
631/114/2398
631/114/2402
Accessibility
Analysis
Benchmarking
Bioinformatics
Biological Microscopy
Biological Techniques
Biomedical and Life Sciences
Biomedical Engineering/Biotechnology
Brief Communication
Computational Biology - instrumentation
Computational Biology - methods
Computational Biology - standards
Data Compression
Databases, Factual
Datasets
Diagnostic imaging
Format
Information Storage and Retrieval
Innovations
Internet
Libraries
Life Sciences
Management
Medical imaging
Medical records
Medical research
Medicine, Experimental
Metadata
Microscope and microscopy
Microscopy - instrumentation
Microscopy - methods
Microscopy - standards
Programming Languages
Proteomics
SARS-CoV-2
Software
United Kingdom
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Summary:The rapid pace of innovation in biological imaging and the diversity of its applications have prevented the establishment of a community-agreed standardized data format. We propose that complementing established open formats such as OME-TIFF and HDF5 with a next-generation file format such as Zarr will satisfy the majority of use cases in bioimaging. Critically, a common metadata format used in all these vessels can deliver truly findable, accessible, interoperable and reusable bioimaging data. OME’s next-generation file format (OME-NGFF) provides a cloud-native complement to OME-TIFF and HDF5 for storing and accessing bioimaging data at scale and works toward the goal of findable, accessible, interoperable and reusable bioimaging data.
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ISSN:1548-7091
1548-7105
DOI:10.1038/s41592-021-01326-w