Combining overlapping segmentations of same region from different images.

ramirez
Fri, 17 Nov 2023 12:30:17 +0000
Algorithms

Hello everyone,

There is a certain region in these images (MRI) whose boundaries end in one view but can be easily observed in another ( e.g., the posterior limit in the coronal plane can be extended in the sagittal plane). In Slicer I have segmented said region in both planes, exported the segmentations to NIFTI files, and would now like to combine them into one complete “object” for further processing. There is the “copy/move” function (CopySegmentFromSegmentation) in the segmentations module in slicer, but our real data isn’t in .seg.nrrd format and upon exporting the resulting segmentation to a binary label map, there are two separate labels overlapping whereas I am aiming for a single connected label. The “collapse labelmap layers” button produces many holes and strange results.

I wanted to know which is the best way to achieve a seamless combined label made of 2+ separate labels of the same region from different images of the same patient taken in different planes.

I can provide info about what I’ve tried and why I couldn’t get it to work if needed. Otherwise I am just curious to know how others would approach it.

Thank you!

12 posts - 4 participants