sarthakpati

import SimpleITK as sitk

image_file = '/path/to/image.nii.gz'
mask_file = '/path/to/image.nii.gz'

image = sitk.ReadImage(image_file)
mask = sitk.ReadImage(mask_file)

bb_filter = sitk.LabelStatisticsImageFilter()
bb_filter.Execute(image, mask)

sarthakpati

import SimpleITK as sitk

# read image
inputImage = sitk.ReadImage('/path/to/input.nii.gz')

# get result in the form of a numpy array
npa_res = my_algorithm(sitk.GetArrayFromImage(inputImage)) # my_algorithm does something fancy

# Converting back to SimpleITK (assumes we didn't move the image in space as we copy the information from the original)
result_image = sitk.GetImageFromArray(npa_res)