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wgiese / polarityjam

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add plot of tiffs along with matplotlib overlays, add npys as output options #16

Open wgiese opened 2 years ago

wgiese commented 2 years ago

For further processing e.g. in FIJI or creating publication figures, matplotlib figures output can be difficult to use. Therefore and output of junction image + orientation mask as an additional channel in a tiff can be helpful

jpalbrecht commented 2 years ago

add option for the user to enable this. save everything as npy file - similar to cellpose output. (e.g. maske, original image, as a dict)

is this necessary?

jpalbrecht commented 2 years ago

an example how do do this via API would be nice