Segmentation of lung and nodule in CT using 3D Slicer
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- เผยแพร่เมื่อ 11 ก.ย. 2024
- This is a screen recording demonstrating basic visualization and segmentation capabilities of 3D Slicer software applied to CT lesion analysis. 3D Slicer is a free open source software for medical image visualization and medical image computing, more info at slicer.org. If you have any questions or need help using 3D Slicer - join the community at discourse.slic...
Nicely done Andrey!
What version is this? I'm using 4.5.0 currently and I know this video is dated. I ask because the merge volume is different (doesn't have the "set" button by the merge volume drop down menu) Not sure what the purpose of using the merge volume is.
+Avina Gupta yes, you need to install FastGrowCutEffect from View->Extension Manager
Thank you for the video! I do not have an option for the grow/cut segmenter icon. Is this something I need to download seperately?
very useful thanks !
@avina heterogenitycad looks like the plug in he is using
Very nice demonstration and tool!
I would like to use this in a research project, where I'll need to make delineations on many reconstructed CBCTs images.
Is it possible to export the volumes in dicom format? (or convert them?)
Which article should I cite if I use this tool?
+Andreas Andersen DICOM export is currently very basic, but we are making progress to improve it. You need to consider that if you export delineations into DICOM, there are different ways to do this. The choice will depend on what software you want to consume those delineations. I recommend you provide more details on the Slicer user list, see "Where to start" section here: wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly
If you like to give credit to Slicer, you can cite this paper: Fedorov A., Beichel R., Kalpathy-Cramer J., Finet J., Fillion-Robin J-C., Pujol S., Bauer C., Jennings D., Fennessy F., Sonka M., Buatti J., Aylward S.R., Miller J.V., Pieper S., Kikinis R. 3D Slicer as an Image Computing Platform for the Quantitative Imaging Network. Magnetic Resonance Imaging 2012.
+Andreas Andersen here is the link to the paper www.spl.harvard.edu/publications/item/view/2219
Nice! Thank you very much!
I use the pydicom library, which I guess only need the basics.
+Andreas Andersen In this case, "Create DICOM Series" module might be sufficient for the task.
questions... i hope you answer .. 1 .-i think it will be great do a course .. on coursera or youtube... just a suggestion ... 2.- i need and emphysema case :( i didn't find one can you help me? .. 3.- when i have time on vacation i will give you more ideas , now im on exams , i think the possibilities to create open source algorithms is big...
***** 1) I agree! I just don't have resources to develop one at the moment ... thank you for your input, we are always looking into ways to improve our training materials! 2) I haven't tried it, but a quick google search returned this: image.diku.dk/emphysema_database/ 3) I agree - your contributions are welcomed!
hello, i´m student in colombia, and I wonder if this kind of segmentation can be done with images of hip dysplasia and where i can get this case.
thanks for yuor attention
Jaime CASTAÑEDA I am not familiar with that type of images.
Andrey Fedorov, It is so great work.
How can i make a 3D model and volume caculation of gray, white brain master?
Thanks!
+Truong Dang this is not a straightforward task. You can look into EMSegmenter module of 3D Slicer, or explore other tools. It will be best if you post your question to the Slicer user list. Let me know if you need help locating it.
+Andrey Fedorov Thank you so much! I have just registered. I use window version of 3D slicer.
Hey man - do you have any advie on how to segment a mandible.... without the teeth
I have not worked on this specific task, but I suggest you post a question on the 3D Slicer forum: discourse.slicer.org/
where can i download cases?? :)))
***** the specific dataset used in this tutorial is not public. However, you can download a lot of similar cases (lung cancer CT) from The Cancer Imaging Archive (TCIA) thecancerimagingarchive.net/. You can use 3D Slicer TCIA Browser extension to conveniently explore TCIA collections and download them directly into 3D Slicer, see www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TCIABrowser.