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doc: Add BIDS support for OME-Zarr #514

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doc: Add BIDS support for OME-Zarr
kabilar May 15, 2026
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Merge branch 'main' of https://github.com/ome/ngff into ome-bids
kabilar Sep 9, 2026
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Update ecosystem page
kabilar Sep 9, 2026
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4 changes: 3 additions & 1 deletion help-desk/index.md
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Expand Up @@ -122,7 +122,7 @@ As with any initiative involving community consensus, feature adoption and scope

**7. Does this format work for non-microscopy data too?**

OME-Zarrs are, by definition, Zarr files with added structures defined by the OME community. These structures have been defined and developed to attend to the needs of the microscopy community, but are by no means limited to those. If you work on other kinds of large multidimensional arrays and you find the OME-Zarr metadata structures useful for your work, great! You might also need different kinds of structures; if you believe these would also be useful for a broader community, engaging with the RFC process is always welcome; otherwise, you might want to consider "pure" Zarr.
OME-Zarrs are, by definition, Zarr files with added structures defined by the OME community. These structures have been defined and developed to attend to the needs of the microscopy community, but are by no means limited to those. If you work on other kinds of large multidimensional arrays and you find the OME-Zarr metadata structures useful for your work, great! For example, the [BIDS specification supports OME-Zarr](https://bids-specification.readthedocs.io/en/stable/common-principles.html#imaging-files) as a storage format for all imaging data. You might also need different kinds of structures; if you believe these would also be useful for a broader community, engaging with the RFC process is always welcome; otherwise, you might want to consider "pure" Zarr.

**8. Is OME-Zarr a stable format?**

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### B

**BIDS** - Brain Imaging Data Structure (BIDS) is a community-developed standard for organizing and describing neuroscientific data. The [BIDS specification supports OME-Zarr](https://bids-specification.readthedocs.io/en/stable/common-principles.html#imaging-files) as a storage format for large imaging data.

[Back to top](#glossary)

### C
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2 changes: 1 addition & 1 deletion resources/ecosystem/index.md
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Expand Up @@ -12,7 +12,7 @@ It fits microscope acquisition software, analysis pipelines, standards and exten
| Name | Link | Description | Status |
| -------- | ------- | ------- | ------ |
| SpatialData | [![image](https://github.githubassets.com/favicons/favicon.svg)](https://github.com/scverse/spatialdata) | An open and universal framework for processing spatial omics data. | [published](https://www.nature.com/articles/s41592-024-02212-x) |
| BIDS | [![image](https://github.githubassets.com/favicons/favicon.svg)](https://bids-specification.readthedocs.io/en/stable/common-principles.html#imaging-files) | A community-developed standard for organizing and describing neuroscientific data, currently adding support for OME-Zarr. | [work in progress](https://github.com/bids-standard/bids-specification/pull/2392) |
| BIDS | [![image](https://raw.githubusercontent.com/bids-standard/bids-specification/refs/heads/master/src/images/favicon.png)](https://bids-specification.readthedocs.io/en/stable/common-principles.html#imaging-files) | A community-developed standard for organizing and describing neuroscientific data, which supports OME-Zarr as a storage format for large imaging data. | [merged](https://github.com/bids-standard/bids-specification/pull/2392) |


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