How to convert Nifti file to Numpy array?

Question

I have 3D array in Nifti file (.ii.gz) and I want to save it as a 3D numpy array. I used Nibabel to convert Numpy to Nifti1. Can I do the opposite?

piRSquared · Accepted Answer · 2017-06-07 21:26:18Z

24

import numpy as np
import nibabel as nib

img = nib.load(example_filename)

a = np.array(img.dataobj)

answered Jun 7, 2017 at 20:51

piRSquared

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Comments

osbm · Accepted Answer · 2023-12-02 22:30:21Z

10

You can also do this:

import numpy as np
import nibabel as nib
    
img_nifti = nib.load(filepath)
img = img_nifti.get_fdata()

osbm

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answered Jun 5, 2020 at 10:22

schrodingercat

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get_data() is now deprecated, now you can use get_fdata() instead