Download slices from a neuroglancer view
Project description
ng-slice-download
A simple command line utility to download the current neuroglancer view to a local TIFF file.
Usage
- Install uv
- Open an OME-Zarr image in neuroglancer, and navigate to the 2D view that you want to download. Important: the view to be downloaded is in the upper left panel.
- Copy the full neuroglancer link from the browser
- Run:
uvx ng-slice-download '[full neuroglancer link]'
replacing [full neuroglancer link] with your neuroglancer link.
It's important to surround the neuroglancer link in quotes because it will probably contain special characters.
Command documentation
Usage: ng-slice-download [OPTIONS] NEUROGLANCER_URL
Options:
--output_dir PATH Directory to download image files to.
--help Show this message and exit.
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