labelmap volume to DICOMSeg for CT vertebrae

[bhatrana]

@lassoan I am trying to export labelmap volume to DICOMSeg for CT vertebrae. I am little bit confused with segmentDescription as mentioned in convert.py code. How you defined those segment part ? The format of data which I would like to export is something like this,

[lassoan]

Segment description comes from standard DICOM terminology. The DICOM standard mostly uses SNOMED-CT codes. You can find the codes in SNOMED-CT, in the DICOM standard, in the DCMQI project, or in Slicer. Probably the simplest is to use the terminology selector in Slicer (available by double-clicking the colored box in the segment list) to select a term and then save the segmentation as .seg.nrrd file. You'll find the codes in the file header.

[bhatrana]

@lassoan Thank you. My plan is to convert label map segmentation of vertebrae to DICOM seg. Initial loading of data is in figure 1. For the testing purpose, all segments(vertebra) are merged into one segment of spine.

After running the code, DICOMseg of Labelmap volume is shown in figure which is not as expected. Figure 2,

Any thoughts ?