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ctrueden/Open-as-numpy-array-via-Bio-Formats.ipynb

Last active April 20, 2019 18:26
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Open an image with Bio-Formats as a numpy array via pyimagej
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Open-as-numpy-array-via-Bio-Formats.ipynb
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ctrueden commented Mar 8, 2019

For more, see https://pypi.org/project/pyimagej/

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ctrueden commented Mar 8, 2019

For NIFTI specifically, there are much easier ways:

import nibabel as nib
img = nib.load(filename)
data = img.get_fdata()

But the above notebook should work for nearly all the Bio-Formats-supported formats, including ones without convenient Python libraries.

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