# Brain tissue segmentation

**URL:** <https://discourse.slicer.org/t/brain-tissue-segmentation/1390>\
**Category:** Support\
**Created:** [November 6, 2017, 10:47pm UTC](https://discourse.slicer.org/t/brain-tissue-segmentation/1390 "2017-11-06T22:47:16Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![JK\_Kim](https://avatars.discourse-cdn.com/v4/letter/j/b9bd4f/32.png) [@JK\_Kim](https://discourse.slicer.org/u/JK_Kim)\
**Post date:** [November 6, 2017, 10:47pm UTC](https://discourse.slicer.org/t/brain-tissue-segmentation/1390/1 "2017-11-06T22:47:16Z")

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Hi,

On CT images, Is there an easy way to segment the brain tissue (the inner soft tissue area of the skull). I don’t need an exact segmentation, but rough estimation. I am trying to use the segmented mask/label as volume of interest to limit the similarity calculation for CT/CT registrations. It will be much appreciated if you have any suggestion… If possible, in a fully automatic way, cause I have over 100 cases to segment… Any suggestion would be much appreciated.

JK

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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:** [November 6, 2017, 11:05pm UTC](https://discourse.slicer.org/t/brain-tissue-segmentation/1390/2 "2017-11-06T23:05:44Z")

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Hi -

Did you try this extension? [https://www.slicer.org/wiki/Documentation/Nightly/Modules/SwissSkullStripper](https://www.slicer.org/wiki/Documentation/Nightly/Modules/SwissSkullStripper)

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**Author:** ![JK\_Kim](https://avatars.discourse-cdn.com/v4/letter/j/b9bd4f/32.png) [@JK\_Kim](https://discourse.slicer.org/u/JK_Kim)\
**Post date:** [November 7, 2017, 2:27am UTC](https://discourse.slicer.org/t/brain-tissue-segmentation/1390/3 "2017-11-07T02:27:44Z")

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It looks great! Thank you~~~