I’m having trouble with my 3D volume rendering. I am currently trying to render a 3D volume of a pseudobulb. The object appears as a thin, flattened disk rather than a full 3D structure. Could this be an issue with the ‘Image Spacing’ or ‘Voxel Size’ not being read correctly from the metadata, or is it simply because the Z-dimension is too low? Any advice on how to make it look more representative would be appreciated.
Do you know the actual z spacing? If so you can type it in. Otherwise it may be in the header in a format slicer doesn’t understand so you need to dig it out manually.
In general though this data is highly anisotropic (only 10 slices) so don’t expect a lot of 3D info. The segmentation you have is pretty meaningless, but you could try just volume rendering directly to see the internal structure in 3D.