Hello, I wanted to know whether it is possible to create a mask for an image using simpleitk and use that mask to show the segmented region in slicer jupyter kernel.
thank you.
push/pull volume node to/from SimpleITK using sitkUtils (see example)
convert the volume node to/from segmentation node (see example)
There are several Segment Editor effects that use SimpleITK, which can serve as a complete example (that even show how to implement interactive segmentation tools, which require some user input):
Thank you for your reply. However, I have another problem. I am using a UNET neural network to segment a series of CT images and save the segmented image as a different file. When I use matplotlib to show the segmented image, the regions of interest are clearly visible with a distinct color, however when I import the image into the slicer and display it is nothing like the segmented one. I have attached the plots from matplotlib and slicer. Can you help me to be able to display the segmented image in the slicer, too?