Hello. I was planning on segmenting brain from the rest of the head (given the head as a DICOM archive with 320 images in it). So I segmented it fairly proper with Threshold and Grow From seeds, now I have a 3d brain (both as selection and a form), and what I’d like to do is simply save only those pixels (of 3D space) of DICOM array (that of 320 images), which are present in the segment. Can I do that?
Hi, yes you can, first get SegmentEditorExtraEffects module then go to segment editor> Mask Volume, select your segment, operation= Fill outside, fill value= -1000 (ideally the lowest intensity on your volume) and hit apply, then export the resulting volume as in here .
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