[Feature] Filter the moving and fixed image prior to registration

brainglobe / brainglobe-registration

Registration to BrainGlobe atlases in napari using Elastix

BSD 3-Clause "New" or "Revised" License

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[Feature] Filter the moving and fixed image prior to registration #50

Open IgorTatarnikov opened 1 month ago

IgorTatarnikov commented 1 month ago

brainreg preprocesses the images prior to registration by filtering. We should replicate this functionality.

This will need a toggle in the UI, maybe a checkbox right above the Run button labelled Filter Images.

adamltyson commented 1 month ago

Just FYI, this pre-processing should be made flexible. One of the issues with brainreg is that the filtering is great for 10um serial section 2p datasets, and less good for everything else.

IgorTatarnikov commented 1 month ago

Sounds good, we should expose the parameters to the user to set via the UI.

In the same vein I guess we should also expose different filtering strategies! I'm unsure of how to present this via the UI, should we curate a set of filtering strategies and have users pick from those, or should we expose the entire skimage.filters and let users construct their own pipeline?