Visualization of lower body muscle segmentation from Dafne

trumanchiu
Sun, 06 Apr 2025 02:10:34 +0000
Support

Hello everyone, I am new to 3DSlicer and I am working on a lower body MRI study with the goal of segmenting 35 muscles and creating 3D visualizations from the segmentations. Manual muscle segmentations have been completed using Dafne. Dafne was originally chosen over 3DSlicer as its software is designed specifically for lower body muscle segmentation.

I would now like to view the masks created in Dafne in 3DSlicer. After exporting the masks from Dafne as DICOM files and importing them to 3DSlicer, they do not appear to be visible.

Additionally, the original MR images were taken in batches, and each 111-image batch contains a 5–6 slice overlap with the adjacent batch. When I import them into Slicer, I have to view each batch separately as different image sets.

Therefore I have a few questions:

1. Would it be possible to view these imported masks in 3DSlicer to create 3D models of each individual muscle?

2. Is there a way to merge the separate MRI batches into a single continuous volume so I can scroll seamlessly from the hip to the foot, rather than switching between different image sets?

Thank you in advance for the help.

12 posts - 3 participants