# Virtual Bronchoscopy

**URL:** <https://discourse.slicer.org/t/virtual-bronchoscopy/7468>\
**Category:** Support\
**Tags:** segmentation\
**Created:** [July 8, 2019, 5:24pm UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468 "2019-07-08T17:24:03Z")\
**Posts on this page:** 11\
**Page:** 1

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**Author:** ![rbumm](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/rbumm/32/9404_2.png) [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Post date:** [July 8, 2019, 5:24pm UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/1 "2019-07-08T17:24:03Z")

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Hi,

This is my first post here.  
I really enjoy 3D Slicer.

Was using the airway segmentation tool of the chest imaging suite to produce an airway model from a CT scan. Worked well. The endoscopy module, however, does not work well with that model.  
The model looks great from the outside, but as soon as I am inside, I do not have a closed wall of the model.

Are any tricks available?

Thank you and regards  
Rudolf

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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:** [July 8, 2019, 5:40pm UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/2 "2019-07-08T17:40:25Z")

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Yes, you can change the culling (visible sides) option in the Models module:

[https://www.slicer.org/wiki/Documentation/4.10/Modules/Models](https://www.slicer.org/wiki/Documentation/4.10/Modules/Models)

> [@rbumm](#):
>
> I really enjoy 3D Slicer.

Glad to hear it!

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**Author:** ![rbumm](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/rbumm/32/9404_2.png) [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Post date:** [July 9, 2019, 2:58pm UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/3 "2019-07-09T14:58:34Z")

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Thank you, that did the trick.

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**Author:** ![saeedeh\_lavasany](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/saeedeh_lavasany/32/7539_2.png) [@saeedeh\_lavasany](https://discourse.slicer.org/u/saeedeh_lavasany)\
**Post date:** [July 19, 2020, 5:41am UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/4 "2020-07-19T05:41:49Z")

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Hi.  
is the virual bronchoscopy mudule available in the 3D slicer?

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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:** [July 20, 2020, 2:10am UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/5 "2020-07-20T02:10:41Z")

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Yes, the module is called “Endoscopy”.

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**Author:** ![saeedeh\_lavasany](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/saeedeh_lavasany/32/7539_2.png) [@saeedeh\_lavasany](https://discourse.slicer.org/u/saeedeh_lavasany)\
**Post date:** [July 20, 2020, 3:11am UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/6 "2020-07-20T03:11:42Z")

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But in endoscopy module you need to set fiducials. What I saw as the bronchoscopy module on YouTube it moves on centerline. Is there anyway to choose start and end point and move on centerline?

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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:** [July 20, 2020, 3:31am UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/7 "2020-07-20T03:31:02Z")

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You can set fiducials or use a curve node. you can place the curve points manually or use SlicerVMTK extension’s Extract centerline module to do it automatically from airway segmentation: you can extract the entire bronchial tree automatically then mark two points between them, and use the resulting curve as input in endoscopy module.

Airway segmentation:

[![](https://img.youtube.com/vi/tJMGe3FMTk0/maxresdefault.jpg "Airway segmentation from CT in 1 minute using 3D Slicer") ](https://www.youtube.com/watch?v=tJMGe3FMTk0)

Finding path between two points in the bronchial tree:

[![](https://img.youtube.com/vi/UpfDP6ejCjg/maxresdefault.jpg "Finding shortest path between two points in the bronchial tree") ](https://www.youtube.com/watch?v=UpfDP6ejCjg)

After this, you can resample the curve to a new curve in Markups module and use the resulting curve in Endoscopy module. Or you can straighten the selected branch using Curved Planar Reformat module (in Sandbox extension) to make it easier to traverse and make measurements.

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<div class="post-metadata">

**Author:** ![saeedeh\_lavasany](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/saeedeh_lavasany/32/7539_2.png) [@saeedeh\_lavasany](https://discourse.slicer.org/u/saeedeh_lavasany)\
**Post date:** [July 20, 2020, 3:57am UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/8 "2020-07-20T03:57:16Z")

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Thank you so much for your help

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**Author:** ![akshay\_pillai](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/akshay_pillai/32/8301_2.png) [@akshay\_pillai](https://discourse.slicer.org/u/akshay_pillai)\
**Post date:** [November 20, 2020, 4:02pm UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/9 "2020-11-20T16:02:40Z")

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Can I ask what settings in models you used to get the result? I have the same issue but I don’t know what visibility is the right one.

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**Author:** ![whu](https://avatars.discourse-cdn.com/v4/letter/w/7ab992/32.png) [@whu](https://discourse.slicer.org/u/whu)\
**Post date:** [March 6, 2023, 9:01am UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/10 "2023-03-06T09:01:06Z")

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what’s the name of the new extension of “Endoscopy” ?  
I can not find the Endoscopy in the extensions.

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**Author:** ![rbumm](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/rbumm/32/9404_2.png) [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Post date:** [March 6, 2023, 10:37am UTC](https://discourse.slicer.org/t/virtual-bronchoscopy/7468/11 "2023-03-06T10:37:53Z")

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Slicer 5.2.2: it is already included, see

![image](https://us1.discourse-cdn.com/flex002/uploads/slicer/original/3X/1/3/1389d8fbac239fc589fd5c4af90477091f381d33.png)