# 2D Segmentation of lung nodules

**URL:** <https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810>\
**Category:** Support\
**Tags:** segmentation\
**Created:** [January 14, 2020, 3:50pm UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810 "2020-01-14T15:50:57Z")\
**Posts on this page:** 7\
**Page:** 1

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**Author:** ![ayat\_karrar](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/ayat_karrar/32/5656_2.png) [@ayat\_karrar](https://discourse.slicer.org/u/ayat_karrar)\
**Post date:** [January 14, 2020, 3:50pm UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810/1 "2020-01-14T15:50:57Z")

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![image](https://us1.discourse-cdn.com/flex002/uploads/slicer/original/3X/0/e/0ececc413e019516e27c7bf78060176c496e3977.png)  
 ![image](https://us1.discourse-cdn.com/flex002/uploads/slicer/original/3X/8/a/8a1bd38316e343a4aa885779cc584d29277ea2d8.png)  
Can 3D Slicer make 2D Segmentation as shown in the previous images?

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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:** [January 14, 2020, 4:44pm UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810/2 "2020-01-14T16:44:56Z")

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Sure you can import a single image and run the segmentation tool, but that’s not really what Slicer is intended for…

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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:** [January 14, 2020, 10:10pm UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810/3 "2020-01-14T22:10:24Z")

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Yes, as @muratmaga suggests, you can segment single-slice volumes in Segment Editor module.

Why are you considering loading and segmenting only a single CT slice?

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**Author:** ![ayat\_karrar](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/ayat_karrar/32/5656_2.png) [@ayat\_karrar](https://discourse.slicer.org/u/ayat_karrar)\
**Post date:** [January 15, 2020, 3:57am UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810/4 "2020-01-15T03:57:34Z")

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Thanks for your reply, i’ve already done my 2d segmentation manually by using matlab algorithm, and just need to compare my results with an automated tool such as slicer.

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**Author:** ![ayat\_karrar](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/ayat_karrar/32/5656_2.png) [@ayat\_karrar](https://discourse.slicer.org/u/ayat_karrar)\
**Post date:** [January 15, 2020, 4:04am UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810/5 "2020-01-15T04:04:07Z")

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i tried to use segment editor many times for 2d segmentation (my target) but i couldn’t. so do you have any file explains this target?  
thanks in advance

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**Author:** ![ayat\_karrar](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/ayat_karrar/32/5656_2.png) [@ayat\_karrar](https://discourse.slicer.org/u/ayat_karrar)\
**Post date:** [January 15, 2020, 4:07am UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810/6 "2020-01-15T04:07:44Z")

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i appreciate your reply.  
yes i know, but i need to do 2d segmentation on slicer to evaluate my algorithm results.

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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:** [January 15, 2020, 4:17am UTC](https://discourse.slicer.org/t/2d-segmentation-of-lung-nodules/9810/7 "2020-01-15T04:17:59Z")

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> [@ayat\_karrar](#):
>
> i tried to use segment editor many times for 2d segmentation (my target) but i couldn’t

Many tools are not applicable to single-slice volumes, but otherwise there should be no problems. Let us know if you have any specific issue.

> [@ayat\_karrar](#):
>
> yes i know, but i need to do 2d segmentation on slicer to evaluate my algorithm results.

CT images are natively 3D (except a very few special cases), so I would suggest to do the segmentation in Slicer on the original 3D volume and compared it with the 3D volume that you save in Matlab using [nrrdwrite.m (available in Slicer’s MatlabBridge extension)](https://github.com/PerkLab/SlicerMatlabBridge/blob/master/MatlabCommander/commandserver/nrrdwrite.m).