Andras hi
Let me add some details to Michelle’s post. The spine was segmented using grow from seed module, which works remarkably well. For the segmentation, the volume is cropped and created as isotropic 0.3125^3, prior to using grow from seed. These are cancer spines, thus requiring hours of fixing due to lack of resolution (0.3125^2 by 0.6-1.5) resulting in the need to separate the facet joints, destroyed geometry etc.
One of the problems that we are facing is that the spines are highly lytic with the cancellous bone often having a range of 50-150 HU, being remarkably low, and close to the discs (40-115) or tumor tissue and even the muscle tissue. I have found that setting the threshold to about 150 allows the module to perform a good initial segmentation of the geometry with the set up of seed locality to 6.5-7.5 up to 9 to maintain the bleed-out to the surrounding discs, tissue to a minimum. As a result, the cancellous bone within the vertebral geometry is not fully captured, as can be seen on the segment masks.
I have used wrap solidify with the threshold set to 0 and (outer surface, carve-hole at 7mm) to fully segment the vertebra, as can be seen on the image. The resulting model created seems to yield a surface mesh
This is one of the models that we are trying to use as the input for the meshing. I am not sure what parameter I am missing in oredr to get the volume model from this module.
As we are trying to figure out the pipeline (CT-FEA), how best should we proceed to allow us to apply segment mesher for creating the volumetric tet mesh? How do we apply material models?
Thank you for your consideration, Ron