.vtk export misalignment with CT scans

[lassoan (Andras Lasso)]

This error has been reported a few times here on the forum. The problem is that DICOM image import in Bonemat is implemented poorly.

I would recommend not to use Bonemat but instead use the corresponding features in Slicer - see more details here:

Dicom to rectilinear grid vtk

By the way, it seems that all that bonemat can do you can already do in Slicer. For the parameter mapping from CT densities to mechanical properties you can use a few lines of Python code (or using py_bonemat_abaqus). The license of bonemat is quite restrictive and you can do so much more in Slicer that I would recommend to consider using just Slicer for your workflow.