Equalizing the number of slices of volumes

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1

Hi everyone,
I have some issue with interpolation. I am working on a project which aims to automatic segmentation of Aorta and Pulmonary. I got 20 different volumes from hospital but these volumes consist of different number of slices. I have tried to make them same with interpolation techniques. I decided to fix them to 319 slices in Resample Scalar/Vector/DWI Volume module’s Linear interpolation with taking one of the volumes as reference. Volumes that less than 319 slices are okay, higher ones lost information as I expected but is there any way can I specify the region of interest so that data is not harmed?

1-205
2-319
3-338
4-427
5-393
6-305
7-273
8-581
9-310
10-319
11-319
12-306
13-408
14-212
15-345
16-366
17-363
18-382
19-382
20-382
These are the number of slices in each volume that I have. While trying interpolation techniques (not only Linear one) I choose the 2. volume as my reference. This issue so important for me and if you have any advise or comment please don’t hesitate to share.

Ekran görüntüsü 2024-12-25 232724
Ekran görüntüsü 2024-12-25 2327241222×866 150 KB

Ekran görüntüsü 2024-12-25 232625
Ekran görüntüsü 2024-12-25 2326251222×861 163 KB

Thank you for your time.

2

Sounds like you are on a reasonable track, but you may also want to do a rigid registration first so you at least have the anatomy lined up before cropping and resampling.

But also, check out the lung segmentation tools (GitHub - Slicer/SlicerLungCTAnalyzer: This is a 3D Slicer extension for segmentation and spatial reconstruction of infiltrated, collapsed, and emphysematous areas in lung CT. and New extension: MONAI Auto3DSeg - raise the bar in AI medical image segmentation for example) before investing too much time in new tools.

If there things missing from existing tools please report back here.

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3

Thanks for your reply sir.
I will search about rigid registration. If you can suggest any source I would be grateful.

4

As I said, check what already exists for chest vessel segmentation first.

But also read about registration: Registration — 3D Slicer documentation

1 Like