Hello All,
I have obtained a dicom image set with the segmented objects of interest burnt in (ie: for red nucleus, the image just shows up as white around that area). I am wondering if 3D slicer can take that Burnt in data of the object, extract it, and recompile the object without the burn in. Further, could i write a python script that could extract that data?
I used brainlab to segment the dicom but brainlab has no way of exporting those object segmentations
BrainLab can save segmentation as DICOM segmentation object. Slicer can load this segmentation if the Quantitative Reporting extension. This workflow has been tested and works well.
You may also consider using Slicer for segmentation. There are lots of manual, semi-automatic, and fully automatic segmentation tools for all kinds of structures.
how strange, then why are the brainlab reps telling me that the only way they will allow for exporting the object segmentations is if they are burnt in.
Do you have a link or a resource to the workflow mentioned?