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what is this error about? I am getting this error while performing resampling over skull-striped MRI. the code is following:
import monai import numpy as np from monai.transforms import LoadImage, Spacing, Compose
image_file_path = r"D:\dataset\01_brainMaskedByDL.nii"
loader = LoadImage(image_only=True) image = loader(image_file_path)
print("Original image shape:", image.shape)
target_spacing = (1.5, 1.5, 3.0) # Adjust these values according to your requirements
reslicer = Spacing(target_spacing, mode="bilinear") resliced_image = reslicer(image)
print("Resliced image shape:", resliced_image.shape)
import matplotlib.pyplot as plt
original_slice = image[image.shape[0] // 2, :, :] resliced_slice = resliced_image[resliced_image.shape[0] // 2, :, :]
plt.subplot(1, 2, 1) plt.imshow(original_slice, cmap="gray") plt.title("Original Image (Axial Slice)")
plt.subplot(1, 2, 2) plt.imshow(resliced_slice, cmap="gray") plt.title("Resliced Image (Axial Slice)")
plt.show()
The text was updated successfully, but these errors were encountered:
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what is this error about? I am getting this error while performing resampling over skull-striped MRI. the code is following:
import monai
import numpy as np
from monai.transforms import LoadImage, Spacing, Compose
Set the file path to your medical image
image_file_path = r"D:\dataset\01_brainMaskedByDL.nii"
Use MONAI's LoadImage transform to load the image
loader = LoadImage(image_only=True)
image = loader(image_file_path)
Print information about the original image
print("Original image shape:", image.shape)
print("Original image spacing:", loader.metadata["spacing"])
Set the target spacing for reslicing along the axial dimension
target_spacing = (1.5, 1.5, 3.0) # Adjust these values according to your requirements
Use MONAI's Spacing transform for reslicing
reslicer = Spacing(target_spacing, mode="bilinear")
resliced_image = reslicer(image)
Print information about the resliced image
print("Resliced image shape:", resliced_image.shape)
print("Resliced image spacing:", reslicer.metadata["spacing"])
Optionally, you can visualize the original and resliced images
import matplotlib.pyplot as plt
Plot a single slice from the axial dimension for both the original and resliced images
original_slice = image[image.shape[0] // 2, :, :]
resliced_slice = resliced_image[resliced_image.shape[0] // 2, :, :]
plt.subplot(1, 2, 1)
plt.imshow(original_slice, cmap="gray")
plt.title("Original Image (Axial Slice)")
plt.subplot(1, 2, 2)
plt.imshow(resliced_slice, cmap="gray")
plt.title("Resliced Image (Axial Slice)")
plt.show()
The text was updated successfully, but these errors were encountered: