# Segmentation and rotating

**URL:** <https://discourse.slicer.org/t/segmentation-and-rotating/399>\
**Category:** Support\
**Tags:** segmentation, transforms\
**Created:** [May 29, 2017, 9:35pm UTC](https://discourse.slicer.org/t/segmentation-and-rotating/399 "2017-05-29T21:35:09Z")\
**Posts on this page:** 4\
**Page:** 1

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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 29, 2017, 9:35pm UTC](https://discourse.slicer.org/t/segmentation-and-rotating/399/1 "2017-05-29T21:35:10Z")

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(Repost from slicer-users)

Hi Slicer-Users,

I have a DICOM set of MR images (shoulder) and I made it 3D with 3D slicer.  
[http://slicer-users.65878.n3.nabble.com/file/n4032270/soru\_1.png](http://slicer-users.65878.n3.nabble.com/file/n4032270/soru_1.png)

And with segmentation modul (with scissors) I cut the humerus bone and  
created surface. That why it appears blue.

[http://slicer-users.65878.n3.nabble.com/file/n4032270/soru2.png](http://slicer-users.65878.n3.nabble.com/file/n4032270/soru2.png)

My question is how can I rotate only humerus bone (blue part in 3D). Right  
now it rotates as a whole.

My second question is; Is there a better way to segment humerus bone apart  
from whole? Because scissors kind of change the shape of humerus bone and I  
dont want it to change.

Any help will be appreciated  
Thank you very much.

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<div class="post-metadata">

**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 29, 2017, 9:40pm UTC](https://discourse.slicer.org/t/segmentation-and-rotating/399/2 "2017-05-29T21:40:18Z")

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Segmenting the humerus from MR will be a challenge. Probably the best is to get familiar with the various tools in the Segment Editor and see what works best for you.

Once you have the segmentation you can apply rotations with the Transforms module:

[https://www.slicer.org/wiki/Documentation/Nightly/Modules/Transforms](https://www.slicer.org/wiki/Documentation/Nightly/Modules/Transforms)

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**Author:** ![lassoan](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/lassoan/32/13_2.png) [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Post date:** [May 30, 2017, 1:11am UTC](https://discourse.slicer.org/t/segmentation-and-rotating/399/3 "2017-05-30T01:11:19Z")

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> [@pieper](#):
>
> My question is how can I rotate only humerus bone (blue part in 3D). Right  
> now it rotates as a whole

If you apply a transform to a segmentation node, the transformation is applied to all segments. To transform a segment separately, create a new segmentation node and copy or move the segment that you want to move separately into the new segmentation node (use Segmentations module Copy/move segments function).

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<div class="post-metadata">

**Author:** ![lassoan](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/lassoan/32/13_2.png) [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Post date:** [May 30, 2017, 1:13am UTC](https://discourse.slicer.org/t/segmentation-and-rotating/399/4 "2017-05-30T01:13:29Z")

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> [@pieper](#):
>
> Is there a better way to segment humerus bone apart  
> from whole? Because scissors kind of change the shape of humerus bone and I  
> dont want it to change.

Scissors is intended for pre- and post-processing. For accurate delineation of a bone, I would suggest to use the manual “Paint” effect or semi-automatic “Grow from seeds” effect.