# How to convert raw rotational CT scan data into 3d data

**URL:** <https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865>\
**Category:** Support\
**Created:** [May 10, 2025, 11:44am UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865 "2025-05-10T11:44:32Z")\
**Posts on this page:** 7\
**Page:** 1

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**Author:** ![Samino](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/samino/32/80166_2.png) [@Samino](https://discourse.slicer.org/u/Samino)\
**Post date:** [May 10, 2025, 11:44am UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865/1 "2025-05-10T11:44:32Z")

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Hi there,  
Question from a newbie, coming from marine biology.

I have raw image data in tiff format, of the subject (mollusc) being rotated in the micro CT scanner.  
How do I convert this into 3D dicom data that can be used in 3D slicer?

Any pointers would be very much appreciated.

Sam

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**Author:** ![pieper](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/pieper/32/8_2.png) [@pieper](https://discourse.slicer.org/u/pieper)\
**Post date:** [May 10, 2025, 1:01pm UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865/2 "2025-05-10T13:01:18Z")

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Usually it’s best to use the software that came with the scanner that acquired the data, since it may be optimized for the hardware. If that’s not possible, you can try [https://www.openrtk.org/](https://www.openrtk.org/). You’ll need to know parameters about the scan to get a dimensionally accurate 3D reconstruction.

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**Author:** ![muratmaga](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/muratmaga/32/3622_2.png) [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Post date:** [May 11, 2025, 6:05pm UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865/3 "2025-05-11T18:05:12Z")

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It is not clear what you mean by the “raw image”. I think you will benefit from reading this section, and getting familiar about microCT imaging and downstream processes.

> **[Tutorials/microCT at main · SlicerMorph/Tutorials](https://github.com/SlicerMorph/Tutorials/tree/main/microCT#what-is-microct-imaging)**
>
> SlicerMorph module tutorials. Contribute to SlicerMorph/Tutorials development by creating an account on GitHub.

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**Author:** ![Samino](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/samino/32/80166_2.png) [@Samino](https://discourse.slicer.org/u/Samino)\
**Post date:** [May 13, 2025, 8:20am UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865/4 "2025-05-13T08:20:58Z")

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@muratmaga thank you this is a very useful overview.  
The images I have are the original shadow images of the subject as it is rotated in the scanner.  
I was hoping to reconstruct these to make slices.

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**Author:** ![Samino](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/samino/32/80166_2.png) [@Samino](https://discourse.slicer.org/u/Samino)\
**Post date:** [May 13, 2025, 8:22am UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865/5 "2025-05-13T08:22:09Z")

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@pieper thank you for the information.  
So is the reconstruction usually carried out by the CT scanner technicians?

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**Author:** ![pieper](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/pieper/32/8_2.png) [@pieper](https://discourse.slicer.org/u/pieper)\
**Post date:** [May 13, 2025, 12:21pm UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865/6 "2025-05-13T12:21:51Z")

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> [@Samino](#):
>
> So is the reconstruction usually carried out by the CT scanner technicians?

Yes, this is the typical way.

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**Author:** ![Samino](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/samino/32/80166_2.png) [@Samino](https://discourse.slicer.org/u/Samino)\
**Post date:** [May 14, 2025, 8:25am UTC](https://discourse.slicer.org/t/how-to-convert-raw-rotational-ct-scan-data-into-3d-data/42865/7 "2025-05-14T08:25:16Z")

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Thank you @pieper I’ll see if they can help me.