Skip to content

doc: Add BIDS support for OME-Zarr #514

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Draft
kabilar wants to merge 1 commit into
base: main
Choose a base branch
from
Draft

doc: Add BIDS support for OME-Zarr #514

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
4 changes: 3 additions & 1 deletion help-desk/index.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -19,6 +19,8 @@ Jump to:

### 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 imaging data.

[Back to top](#glossary)

### C
Expand Down Expand Up @@ -143,7 +145,7 @@ 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?**

Expand Down
2 changes: 2 additions & 0 deletions index.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -51,6 +51,8 @@ These are *some* of the organizations (and their dataset pages) that are using O
- [Jackson Laboratory (JAX)](https://images.jax.org/)
- ... [and more](/data/index.html)

Additionally, the [BIDS specification supports OME-Zarr](https://bids-specification.readthedocs.io/en/stable/common-principles.html#imaging-files) as a storage format for imaging data.

## How do I use OME-Zarr?

* Already have a Zarr?
Expand Down
Loading