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@joshmoore @constantinpape
We (ping @cgirardot) have been thinking a bit about a data management with ome.ngff and had a question/ concern.
Let's say you start with an ome.zarr container that o…
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@folterj was looking for sample datasets and came across three (unsuitable) locations:
* https://github.com/ome/ome-zarr-py/tree/master/tests/data (dataless to keep the small)
* https://www.open…
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# Description
Some desired metadata attributes are a little unclear in the context of napari, and even in the context of OME-NGFF
- scenes/number
- experiment-id
The goal of this task is to clarify…
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We are looking to save multiplexing data (⇒ multiple cycles of acquisitions for the same plate) to HCS OME-Zarr files. Reading in the OME-NGFF spec, [plates have the acquisitions key]([https://ngff.op…
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What do you think of having the MDA function automatically handle the writing of data to a zarr on disk that conforms to https://ngff.openmicroscopy.org/latest/ ?
I looked into this a little bit bu…
ianhi updated
3 years ago
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Hi, I am wondering if we can also generate pyramid for point cloud (i.e. 2D/3D histogram with different bin sizes) and use the viewer too dynamically pull zarr chunks from remote locations. This would…
oeway updated
2 years ago
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@joshmoore I am working on initializing the project.
What should I write in the pom at those places?
```
org.scijava
pom-scijava
31.1.0
org.embl.mob…
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Steps needed on idr-next for NGFF upgrade.
NB: current checklist is for actions on idr-testing (newly redeployed on 10th Oct)
Detailed workflow is at https://github.com/IDR/omero-mkngff/issues/2 but …
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- add conda and pip environment files for necessary dependencies (probably just zarr and skimage)
- download and unpack the example data automatically if it's not found
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If the user calculates Max Intensity Projection on every channel for every FOV, along with maybe some segmentation results, what would be the best way to store them in the new version of zarr store?
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