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brainglobe / cellfinder-core

Standalone cellfinder cell detection algorithm
https://brainglobe.info/documentation/cellfinder/index.html
BSD 3-Clause "New" or "Revised" License
19 stars 16 forks source link

jp2 input format[Feature] #171

Closed ranczlab closed 1 year ago

ranczlab commented 1 year ago

Does cellfinder (napari or command line) read jpeg2000 files? If not, would it be complicated to implement it? cheers, Ede

adamltyson commented 1 year ago

Hey @ranczlab,

The command line tool will be gradually phased out, and we won't be adding any new data loaders. You could create your own scripts using cellfinder-core and a Python package of your choice to load JPEG2000

Alternatively, the napari plugin will (should) work on any data you can load into napari. I don't know of a JPEG2000 loader off the top of my head, but if you ask at https://forum.image.sc, somebody may know. If one doesn't exist, creating a napari reader plugin is fairly straightforward.