Hi community. I have the DICOM files of a skull and the Surface model (in PLY format) separately. When I load both into Slicer, and do the volume rendering of the DICOM files, I can see that they are NOT aligned. [image] How can I align/superimpose both (volume rendering and surface model)? Th…

Thats perfect. By changing to RAS the surface model load it was perfectly aligned. Thanks [image]

[image] paleomariomm: Thats perfect. By changing to RAS the surface model load it was perfectly aligned. Thanks Where did you do this segmentation? If this was done in slicer, this shouldn’t have happened.

Yes, I did my segmentation in Slicer. My flow was: Load the skull and segment it entirely. Export model to PLY format. Load the DICOM files and do volume rendering. Load the exported PLY file. Best

[image] paleomariomm: Load the skull and segment it entirely. Export model to PLY format. Can you share a one dataset of dicom and segmentaiton. This should not have happened, if you exported from Slicer. @pieper @lassoan

Hi all, I’m facing the same problem. I export a segment as stl using: slicer.modules.segmentations.logic().ExportSegmentsClosedSurfaceRepresentationToFiles(saveResults_path,segmentationNode,segmentIDsVTK, 'STL',False,1.0,False) Following the documentation ( link ) it should save the geometry in RAS…

Aligning a surface model and volume rendering of the same skull

Support

muratmaga (Murat Maga) May 9, 2024, 1:12pm 2

This seems like RAS vs LPS coordinate issue. What happens when you choose the coordinate system for your 3d Model explicitly during the load.

Topic		Replies	Views
Saved surface model is not aligned with volume when viewed in external software Support	2	1947	April 18, 2021
Align 3D ultrasound image and surface model Support dicom	8	871	April 18, 2021
Importing a segmentation Support	2	623	May 23, 2019
Importing segmentation into 3d slicer Support segmentation	10	4071	June 12, 2019
Loaded models are sometimes in different coordinate system, and sometimes not. What exactly is going on? Support	8	543	February 4, 2022

Aligning a surface model and volume rendering of the same skull

Related topics