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brainglobe / brainreg

Automated 3D brain registration with support for multiple species and atlases.
https://brainglobe.info/documentation/brainreg/index.html
BSD 3-Clause "New" or "Revised" License
124 stars 29 forks source link

[Feature] Specify units for voxel sizes in napari plugin #223

Open dstansby opened 5 days ago

dstansby commented 5 days ago

Is your feature request related to a problem? Please describe. I was reading https://brainglobe.info/tutorials/tutorial-whole-brain-registration.html and thinking about trying to register a brain from the Human Organ Atlas. One of the first parameters that needs setting is the voxel size. It's not clear from the screenshots of the napari plugin what units these are in however.

Describe the solution you'd like An indication in the GUI of what units the voxel size is in.

Describe alternatives you've considered A clear and concise description of any alternative solutions or features you've considered.

Additional context Add any other context or screenshots about the feature request here.

adamltyson commented 5 days ago

Definitely an oversight on our part. We'll add it to the docs, but do you think it should be added to the main GUI (e.g. voxel size (z), um), or would adding it to the tooltip be sufficient?

BTW I wouldn't expect brainreg to work well for your data, we don't really have a suitable human brain atlas (yet).

dstansby commented 5 days ago

I'd be pretty pro having it explicitly in the GUI. Thanks for heads up on the human atlas!

adamltyson commented 5 days ago

We'd like to gradually support more human atlases, but not sure which one would be best for your application. TemplateFlow may be useful for you.