Image Processing

Image Processing - What happens after scanning?

The user will be informed when scanning is complete. Should the end user decide to perform post-analyses, please contact Sabra for other available resources. The following can be performed for data analyses:

  • The raw data is opened in the XMReconstructor software, and images are put into 3D form. Reconstructed 3D data is saved as an image stack in the following output formats: txm, dicom, bin, or tiff.
  • Exported data can then be input into 3rd party software for further processing. Our workstation has the following post-analysis softwares which are accessible to all users: Amira 5.4.2, Avizo Fire 8.0, ImageJ, Matlab. Both 2D image slices and a 3D rendering is automatically attainable with a viewer. Quantitative results may also be found through image thresholding and segmentation techniques, and allows for acquiring differences in intensity (grayscale changes) or mineral density changes. Volumes of specific features can also be determined, for example the volume of a specific mineralized tissue (enamel, dentin, bone), volume of vasculature networks, volume of osteocyte/lacunae, or even soft tissue. *Note: for imaging soft tissue, an appropriate staining/contrast agent must be used. 

Image Processing examples include:

  • Bone volume fraction
  • Soft to hard tissue volume fraction, morphology of soft tissue relative to hard tissues
  • In situ loading and strain mapping