ngff
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Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
A tool to validate whether a dataset follows the NGFF spec. Per-version validation. Generate a visual and programmatic summary required and optional features and any errors related to types, etc.
Hi all, first, thanks for starting this project - we are considering NGFF / Zarr 3.0 for large 3D multichannel datasets of light-sheet microscopy brain data. I'm wondering if there...
should definitely be clarified in the spec. My initial vote would be to do the same as zarr (UTF-8, I think). cc @mrmh2
currently we have the version distributed because we initially thought to version individual parts of the spec. But this is too complicated and we should switch to a single top-level...
Dealing with multiple channels image with masks for example image_id = 6001247 (2 channels, 257 z) When the masks are converted to labels, it is collapsed to c = 1...
**What is an image collection?** A collection of images is a semantic grouping of two or more associated ome-ngff images and/or image-labels. This definition could include - Images which do...
Most of the names in the spec are ~~snake case~~ camel case. However, `image-label` is not, see https://ngff.openmicroscopy.org/latest/#label-md. Is there a particular reason for this? If not, could it still...
In the current spec, the zarr group for an image contains _arrays_ (the different scale levels of the image data) as well as (optionally) a _group_ (the `labels` group). E.g.,...
I am pretty confused by the ["labels" metadata section](https://ngff.openmicroscopy.org/0.4/#labels-md): It looks like this specifies the path to the *first scale array*. However, it would make much more sense to me...
With the aspiration for OME-Zarr to be *The One Imaging Format to Rule them All* 💍 , I would like to propose compatibility with [xarray](https://xarray.pydata.org/en/stable/). For the most part, the...