Questions about importing labelmap directly to produce 3D model

Support
1

Hello Slicer Community! Very new user here,
I have some annotated volumetric data (in the form of one 2D array per slice) where each pixel is labelled with a material and a volume index. The format is currently stored on matlab/python.

I want to use the model maker module to import this labelmap directly and create a 3D surface mesh of my model which I will use for biomechanical finite element analysis.

I’m having a bit of trouble understanding which file formats I need to provide, I understand that to normally get a label map i need to import images (DICOMS,pngs etc) and then segment the data. But in my case I already have the annotated data and I’m unsure of how to import it directly into slicer.

If anyone can guide me in the process that would be fantastic
Thank you!

2

You can save the labelmap file into nrrd format and then load it as segmentation by selecting “Segmentation” in Description column in “Add data” window.

You can then create a volumetric mesh using SegmentMesher extension.