Big picture: I want to convert the CT scan data from a SPECT of my spine into a finite element model to validate use of a novel implant in a repair thereof.
Little picture: In attempting to follow this workflow for converting the CT data to an stl, I cannot figure out how to clear out the red point cloud I’m left with after thresholding the cropped segment:
The documentation for the volume rendering module provides instructions for how to remove arbitrary regions, but not how to removing everything under threshold.
After you threshold in the SegmentEditor, you can enable the Show 3D to see a surface rendering of the segmentation. You can turn off the volume rendering in the VolumeRendering module to see the surface better. If you want to see a volume rendering that takes into account the segmentation, try the ColorizeVolume module.
If you are planning to make a finite element model, you may want to look at the SegmentMesher extension, although meshing tools outside of Slicer probably give better results for single-material meshes.
Yep, that did it. Now I get to figure out the best way to fill back in all the bone the thresholding took out and erase the other bits the thresholding didn’t nix.
