# How to upload skull base CT segmentation model

**URL:** <https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322>\
**Category:** Support\
**Created:** [November 19, 2022, 5:21pm UTC](https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322 "2022-11-19T17:21:58Z")\
**Posts on this page:** 6\
**Page:** 1

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**Author:** ![gang\_wu](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/gang_wu/32/17403_2.png) [@gang\_wu](https://discourse.slicer.org/u/gang_wu)\
**Post date:** [November 19, 2022, 5:21pm UTC](https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322/1 "2022-11-19T17:21:58Z")

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Operating system:mac  
Slicer version:5.0  
Expected behavior:  
Actual behavior:  
Hi  
I am a neurosurgeon and have been using 3D slicer for 10 years. Early works focused on anatomical learning with personal terminals. The “segment edit” is a very helpful tools to simulate the job of performing a surgical anatomy. In my opinion, the establishment of a digital simulation anatomy laboratory is very meaningful for the skull base surgeons. However, the segmentation of skull base bones is a time-consuming and laborious work. I’ve already done some of this groundworks. I would like to share my segmentation models of skull base with others. How to upload the anonymized datas? thank you!

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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 20, 2022, 5:18pm UTC](https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322/2 "2022-11-20T17:18:12Z")

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Thank you for your offer. Expert annotations of real data are essential for creating accurate automated segmentation tools. I haven’t tried segmentation of the skull base, but in other areas of the body it has been possible to train machine learning models based on a few hundred or maybe as few as a few dozen. The details on exactly how much data is needed depend on the variability of the anatomy and the imaging.

If you are able to create a folder of consistently named images (CT I’d guess) plus segmentation files and make it available via a file sharing service such as dropbox, google drive, or similar then I hope someone could try training a model, e.g. with [MONAI Label](https://github.com/Project-MONAI/MONAILabel) or give you feedback about what else might be needed. Let us know if you want to discuss further details of how to share the data.

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**Author:** ![gang\_wu](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/gang_wu/32/17403_2.png) [@gang\_wu](https://discourse.slicer.org/u/gang_wu)\
**Post date:** [December 2, 2022, 1:05am UTC](https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322/3 "2022-12-02T01:05:11Z")

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Hi Pieper  
Thank you for your attention. Yes, I want to upload the skull base bone segmental vtk file based on thin scan CT. However, I lack the necessary experience of files uploading. Is there any

 ![Screenshot_1](https://us1.discourse-cdn.com/flex002/uploads/slicer/original/3X/7/4/7430037791a5a0344ff18fb420ae24f23f30e392.jpeg)  
 ![Screenshot](https://us1.discourse-cdn.com/flex002/uploads/slicer/original/3X/a/2/a2e209b2f011e342bb7cf79eed8823a6bf21bd6a.jpeg)  
designated website for uploading? Thanks!

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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:** [December 3, 2022, 3:51pm UTC](https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322/4 "2022-12-03T15:51:30Z")

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These look very nice 👍 How many do you have?

There are many storage options. One option is Zenodo, which is used for a similar dataset:

> **[Dataset with segmentations of 104 important anatomical structures in 1204 CT...](https://zenodo.org/record/6802614#.Y4twN-xufa4)**
>
> In 1204 CT images we segmented 104 anatomical structures (27 organs, 59 bones, 10 muscles, 8 vessels) covering a majority of relevant classes for most use cases. The CT images were randomly sampled from clinical routine, thus representing a real...

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**Author:** ![Tannadrake](https://avatars.discourse-cdn.com/v4/letter/t/ea5d25/32.png) [@Tannadrake](https://discourse.slicer.org/u/Tannadrake)\
**Post date:** [April 26, 2023, 2:34pm UTC](https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322/5 "2023-04-26T14:34:05Z")

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This segmentation is beautiful. Did you find a find a place to store these models? I would love to take a closer look and potentially 3D print educational models for the residents in my program if you are willing to share them.

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**Author:** ![Basil\_Berinyuy](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/basil_berinyuy/32/17159_2.png) [@Basil\_Berinyuy](https://discourse.slicer.org/u/Basil_Berinyuy)\
**Post date:** [December 12, 2024, 9:33am UTC](https://discourse.slicer.org/t/how-to-upload-skull-base-ct-segmentation-model/26322/6 "2024-12-12T09:33:53Z")

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Hi gang\_wu, your segmentation looks very beautiful, did you do it manually? or is it automated? could you please run me through how you arrived such results? I have a similar project and this would be super useful. Thank you in advance.