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Booritas / slideio

BSD 3-Clause "New" or "Revised" License
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output image value range #11

Closed mrymsadeghi closed 7 months ago

mrymsadeghi commented 1 year ago

When I want to read an image from czi slide and I chack the pixel values of the image: image = scene.read_block(rect, (int(s[0]/downrate),int(s[1]/downrate)), [0]) np.unique(image)

it outputs as such: array([ 134, 144, 152, ..., 46460, 48579, 48945], dtype=uint16)

how can I change this to the range of 0-256? Would you please give me a hint of in what format is scene.read outputting please?

Booritas commented 1 year ago

SlideIO library does not perform any transformation of pixel values. It delivers values exactly as they come from the scanner. You can retrieve type of pixel value for a channel with scene method "get_channel_data_type". Currently normalization of data with the library is not supported. I'm working on implementation of filters that should enable such possibility but it will be available earliest in a month. The only way I see now to scale the pixel value is to determine max pixel value and apply scaling with numpy. Best Regards, Stanislav