Volume and segment straightening

Support
1

Hello, I have a segmented volume of the spine, similar to the video below. I want to get the center points and straighten all the segments and the volume in one fell swoop. What is the best way to do this?

I see a workflow in the 2nd video that uses “extract centerline” but I cannot figure out how to get this extension. I see from old notes that it might be in VMTK but I no longer see this as a downloadable extension in the Slicer “install extensions” menu (I have the latest version). Perhaps there is a newer and better way to go about this?

I could see one problem in straightening multiple spinal segments is that it would introduce overlap. Any methods/approaches that would deal with this might be ideal.

Thanks!

spine segments

Semi-automatic vertebra segmentation on CT

vessel straightening

New vessel branch extraction module for 3D Slicer

2

If you are using SlicerPreview, the SlicerVMTK extension is broken since months. You may use SlicerVMTK with SlicerStable.

3

Thanks. I installed the most recent stable version of slicer and indeed found VMTK. Some of the menu items look different from the video I shared (earlier version). For example, where is curved planar reformat?

This is what my menu looks like:

image
image604×480 101 KB

4

It’s in the Sandbox extension.