A reader for zarr backed OME-NGFF images.
This napari plugin was generated with Cookiecutter using with @napari's cookiecutter-napari-plugin template.
You can install napari-ome-zarr via pip:
pip install napari-ome-zarr
Napari will use ome-zarr to open images that the plugin recognises as ome-zarr.
The image metadata from OMERO will be used to set channel names and rendering settings
in napari::
$ napari 'https://s3.embassy.ebi.ac.uk/idr/zarr/v0.1/6001240.zarr/'
# Also works with local files
$ napari 6001240.zarr
OR in python::
import napari
with napari.gui_qt():
viewer = napari.Viewer()
viewer.open('https://s3.embassy.ebi.ac.uk/idr/zarr/v0.1/6001240.zarr/')
If single zarray is passed to the plugin, it will be opened without the use of the metadata::
$ napari '/tmp/6001240.zarr/0'
Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.
Distributed under the terms of the BSD-3 license, "napari-ome-zarr" is free and open source software
If you encounter any problems, please file an issue along with a detailed description.