Operating system: MacOS Slicer version:4.11.20210226 Expected behavior: Actual behavior: I want to reconstruct 10 2D images to 3D. I have tried MatLab but I am having difficulties interpolating the gaps in between the adjacent slices. A colleague told me to try Slicer but I don’t know how to nav…

To help us understand the context, here are few additional questions: How were these images acquired ? Are these “Optical Coherence Tomography” images ? What should be the spacing in mm between slices ? Is the plan to use 3d printing ? Do you expect to generate a surface model ? Edit: It looks …

Hi, The images are acquired from OCT; after image processing, I have 10 (450x600 array) that was plotted on MatLab using the Imagesc function. Each slice represents a cross-section of a sample. My goal is to put the 10 slices together to reconstruct the surface of my sample. I want to interpolate …

You can load a stack of images as described here , then remove the Matlab plot axes by using Crop volume. You can then go to Data module and drag-and-drop the image to a 3D view to see it with volume rendering: [image] I would recommend to save the image array as nrrd (for example, using nrrdwrit…

Yes, the images were reconstructed using Matlab. I tried using Matlab to generate a 3D representation but I am not able to view the interested surface. The images represent the cross-sections of a surface, I want to put them together to reconstruct the surface. This is what I got when I tried it on …

You need to follow all the steps described here , specifically: since you unnecessarily applied a color mapping to the image for plotting it in Matlab, you need to undo that using “Vector to scalar volume” module since a bmp stack cannot store the image spacing, you need to specify the spacing betw…

How to create 3D from 2D slices?

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Akeem_Azeez (Akeem Azeez) March 3, 2021, 6:08pm 5

Hi,
I have followed the steps you recommended but how do I use the volume rendering to view the image. Kindly see the attached file for what I got after the drag and drop in the data module. Thanks

Akeem

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How to create 3D from 2D slices?

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