To all,
@lassoan
Andras hi, could ask for your help with the first issue? I hope to present next week, and it would be very helpful to be able to segment out all the data outside the disc segmentation. I think there used to be an option to use the segment label to restrict the region of DTI reconstruction. However, I cannot find a way to do so (only option is brain label?). Happy to share the slicer file. R
You can use “Mask volume” effect in Segment Editor to blank out voxels of a volume outside the current segment. Would that be sufficient for you?
You can use Crop volume module for this. You can enable rotation for the region of interest (by right-clicking on any of its control point and in check “Interaction options” → “Rotate”.
I hope so, I will try this now. Steve is also looking into this.
Trying to mask a DTI volume with the segment editor led to a crash (maybe not a surprise but still not good).
This method works after exporting the segmentation to a label:
>>> d = array("Output DTI*e")
>>> m = array("11-9001-pre_load-Segmentation-label")
>>> d[numpy.where(m != 1)] = numpy.zeros([3,3])
I’ll make new nrrd dti files for you Ron.
Steve Thanks!!!
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