How to convert NIFTI or DICOM images into 3D mesh by using ITK?

dzenanz · July 17, 2021, 11:34pm

Here is a Python example:

dzenanz/HASI/blob/3d9617d8834a07d639e3f7260aad8e62a867db58/src/hasi/segmentation_pipeline.py#L197-L206

    
      
          # now generate the mesh from the segmented case
          padded_segmentation = itk.constant_pad_image_filter(
              result_image,
              PadUpperBound=1,
              PadLowerBound=1,
              Constant=0
          )
          
          
mesh = itk.cuberille_image_to_mesh_filter(padded_segmentation)
          itk.meshwrite(mesh, root_dir + bone + '/' + case + '.vtk')

It is currently in a WIP branch in my fork, but it should eventually make it into GitHub - KitwareMedical/HASI: High-throughput Applications for Skeletal Imaging.