Hi. I want to see masked images as NIftI format using 3D slicer. I use “Add Data” option and upload the file. I can see the images on 3D slicer but not the masks (segmentations). Do you have any idea how to fix this? Thank you.
When you load a nifti file by default it is assumed that it is a scalar volume. Since scalar values are continuous, value of 1 will look almost the same as the background value of 0.
To load a “mask” (it is called a segmentation or labelmap volume in Slicer) you need to indicate this in the “Add data” window as described here.