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3d_slicer_volume_numpy_array_access_and_threshold.py

python

This script demonstrates how to download a sample volume, access its image data a

15d ago19 linesslicer.readthedocs.io
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3d_slicer_volume_numpy_array_access_and_threshold.py
1import SampleData
2import numpy as np
3
4# Download and load a sample volume
5sampleDataLogic = SampleData.SampleDataLogic()
6volumeNode = sampleDataLogic.downloadMRHead()
7
8# Get the volume data as a numpy array
9# Note: This is a view into the volume's internal data
10voxels = slicer.util.arrayFromVolume(volumeNode)
11
12# Perform a simple image processing operation (thresholding)
13# Set all voxels with value > 100 to 100
14voxels[voxels > 100] = 100
15
16# Update the volume node to reflect changes in the UI
17slicer.util.arrayFromVolumeModified(volumeNode)
18
19print(f"Volume '{volumeNode.GetName()}' has been processed.")