Hi everybody, Forgive me if this has already been mentioned but I wasn’t able to find a procedure that works with the version of Slicer I’m using (Nightly 4.11.0, 2018-11-25) Does anyone know of a way to export a DICOM directory after segmentation? I am working with a hepatic lesion CT and have se…

You can export segmentation as DICOM RTSTRUCT if you Install SlicerRT extension. If you install Reporting extension then you may export to DICOM Segmentation object. There was an error in the image export in nightly version that I’ve fixed today, so the export should work correctly in nightly build…

Thank you Andras! I will try what you recommended and update the thread if I have any issues.

[50%20AM] I downloaded the most recent nightly build of Slicer as well as the SlicerRT extension and am still getting the same error after clicking “Export”. Is there a step in the workflow that I am missing? I am running MacOS High Sierra 10.13.6

Could you please upload the application log (menu: Help / Report a bug) to somewhere and post the link here?

I apologize in advance if this makes this post (and the thread) unnecessarily long but here is the application log ▶ Logs

[image] avarghes23: [ERROR][VTK] 17.12.2018 12:22:56 [vtkMRMLSegmentationStorageNode (0x7fd95f55df70)] (/Volumes/Dashboards/Preview/Slicer-0/Libs/MRML/Core/vtkMRMLSegmentationStorageNode.cxx:251) - ReadDataInternal: segmentation file ‘/Users/AVarghese11/Documents/LIVER_DeleteAfter/601 ABD COR 3X…

I believe the segmentation loaded correctly. But for some reason, while performing the export it says the segmentation is not found. But when I look at the data tree, the segmentation is there. Attached is a screenshot illustrating this. [05%20PM]

[image] avarghes23: I was wondering if there was a way that I can export the cropped and segmented DICOM dataset from Slicer so that another person can simply view my segmentation of the lesion slice by slice via a simple DICOM viewer If your goal is to “view my segmentation of the lesion sli…

Thank you for the suggestion. Unfortunately, when I do this, I end up with a DICOM image stack of the cropped image stack I was previously working with (prior to segmentation). Is there a setting within the “Create a DICOM Series” module where I can specify my segmentations to be included in the exp…

I agree that simple 3D image volumes can be loaded by most viewers. However, I am not sure if many viewers can show the original volume with the segmentation volume overlaid. [image] avarghes23: However, my understanding is that DICOM is a universal medical imaging format so in theory any progr…

Exporting DICOM directory after segmenting lesion

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Exporting DICOM directory after segmenting lesion

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