Operating system: Windows 8
Slicer version: 4.8.1
Expected behavior: get segmentation output in xml, or just binary image format like jpg or png.
Actual behavior: can’t figure out how to get correct format.
Hi,
I am very new to slicer, and my goal of using slicer is to create manual annotations on dicom files, then save those annotations as binary array(1 for segmented area, 0 for background) with exact same dimension with original image. The purpose of saving these masks is for training neural nets.
However, I haven’t figured it out how to save these segmented areas. If someone can tell me how to do this or provide some tutorial links, that will be great.
Export segmentation to labelmap node in Segmentations module’s Export/Import section. To match the exported labelmap’s geometry with another volume’s choose a reference volume in Advanced section / Reference volume.
I’m also looking to generate masks for neural nets, I see how I can follow the instructions you’ve given but I don’t see how I can get the output as a series of .jpgs or binary arrays. I’m not sure how to convert .nnrd and .ctbl into a series of images