Workflow of TEM section 3D registration. A. MicroCT stack. B. LM image stack. C. LM image stack inverted and Gaussian filtered to enhance similarity with the microCT stack. D. Untreated LM stack with co-registration parameters adopted from the previously co-registered LM stack that was inverted and filtered. E. TEM section. F. Template of LM section that was re-sectioned for TEM. G. TEM section with 3D co-registration parameters. H. Final 3D scenario with co-registered data of microCT, LM and TEM. Processes: 1, co-registration of the modified LM image stack with the microCT stack; 2, adoption of the co-registration parameters to the untreated LM stack; 3, 2D registration of TEM images in LM image templates with the help of Photoshop. 4, adoption of the of the 3D co-registration parameters to the 2D registered TEM image. Blue background: 2D environment; peach colored background: 3D environment.