Hi all, I’m facing another problem. I’m using machine learning method to do segmentation for medical images, and at first I convert the DICOM files to Nifti format. I have several DICOM directories and their corresponding DICOM-RTSTRUCT file as the segmentation masks. The problem is: for several cas…

First of all, please use the latest nightly because 4.10.2 is almost two years old. To save a segmentation as nifti, you need to export it to labelmap, but it seems you exported it to models. [image] Then you can save the labelmap to nifti using the save function [image]

[image] How to show DICOM and the corresponding RT STRUCTURE? Could you please suggest some software to convert DICOM-RTSTRUCT file to Nifti format? It seems the 3D Slicer doesn’t have this functionality. Slicer can certainly read DICOM RTSTRUCT and save it as a labelmap in Nifti format. […

@lassoan Thanks a lot! Now I can export the contours successfully!

Does the value of the ROI outline defined in the labelmap exported by this segmentation module be 1 or 0?

If you export to labelmap, each segment will be assigned a unique voxel value, starting from 1. Voxel value of 0 means outside of all segments.

When I am saving a CTV RTstructure as a labelmap, I am not able to save this as a nifti. The choices are STL or OBJ. What am I missing here? I am using the T1 MRI as grayscale reference volume, and I need to save the labelmap as a nifti in order to use in python and compare to machine learning-deriv…

Thank you!! You made my day :slight_smile:

When I was about to create the binary map, the software just had no response. Do you know why? My version is the newest one.

Convert DICOM-RTSTRUCT format to Nifti format

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Nifti to DICOM-RT structure conversion Support dicom , slicerrt , nifti	3	1855	June 4, 2021
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Trying to export nrrd file segmentation to DICOM Support segmentation , dicom	6	2560	November 29, 2021
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Convert DICOM-RTSTRUCT format to Nifti format

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