Medical Imaging Example Meshes

The directory containing the input data is Medical_Imaging_Data.

Head-Neck

• Input image : Dimensions (255x255x229) with spacing (0.976562x0.976562x1.40002)
• Delta = default case: 205,416 tetrahedra
• Delta = 1.5 case: 770,853 tetrahedra

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Commands to generate meshes :

Delta = default : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Head-Neck.mha --output ./Head-Neck,d=2.49023.vtk

Delta = 1.5 : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Head-Neck.mha --delta 1.5 --output ./Head-Neck,d=1.5.vtk

Brain-With-Tumor-Case17

• Input image : Dimensions (448x512x176) with spacing (0.488281x0.488281x1)
• Uniform with Delta = default case: 222,540 tetrahedra
• Graded with Delta = default case: 94,383 tetrahedra

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Commands to generate meshes :

Uniform : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Brain-With-Tumor-Case17.nii --output ./Brain-With-Tumor-Case17,d=1.76001.vtk

Graded : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Brain-With-Tumor-Case17.nii --volume-grading --output ./Brain-With-Tumor-Case17,d=1.76001,graded.vtk

Knee-Char

• Input image : Dimensions (512x512x119) with spacing (0.27734x0.27734x1)
• Uniform with Delta = default case: 386,869 tetrahedra
• Graded with Delta = default case: 274,309 tetrahedra

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Commands to generate meshes :

Uniform : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Head-Neck.mha --output ./Knee-Char,d=1.19.vtk

Graded : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Head-Neck.mha --volume-grading --output ./Knee-Char,d=1.19,graded.vtk

Ircad2

• Input image : Dimensions (512x512x219) with spacing (0.976562x0.976562x1.40002)
• Uniform with Delta = 1 case: tetrahedra
• Graded with Delta = 1 case: 6,072,751 tetrahedra

Ircad2,d=1.png

Commands to generate meshes :

Uniform : [ Output Mesh]

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Ircad2.nrrd --delta 2 --output ./Ircad2,d=2.vtk

Graded  : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m podm3d --input ./Medical_Imaging_Data/Ircad2.nrrd --delta 1 --volume-grading --output ./Ircad2,d=1,graded.vtk