Crop volume to a single slice

Support
1

Operating system: win10 64bit
Slicer version:4.10
Expected behavior: NA
Actual behavior: can I crop one slice (dicom) to get a specific feature.

2

I don’t know how this relates to the topic title (template matching), but you can crop a volume using Crop volume module.

3

i would like to crop only one slice then I will use it as a template later in matching the same feature in other slices, sorry for confusing title

4

You’ll get inaccurate 3D alignment if you only use a single 2D slice for alignment of images.

You can fully automatically align two images of different patients (either rigidly or using warping transform) using SlicerElastix extension. General registration (BRAINS) module that is bundled with Slicer may be usable, too, but usually it requires more parameter tweaking.

If you prefer not to do intensity-based registration then you can align images based on anatomical landmarks using Landmark registration module or SlicerIGT extension’s Fiducial registration wizard module.

1 Like