Nick Tustison
Nick Tustison
It's there for legacy reasons. But, yes, if I were to start development from scratch, I would not include it.
So I implemented the inverse operation for data augmentation [here](https://github.com/ANTsX/ANTsPyNet/blob/master/antspynet/utilities/histogram_warp_image_intensities.py). Using the internals of that program, I'm pretty sure I could implement Nyul's version with arbitrary masking. Let me look...
https://github.com/ANTsX/ANTsPy/pull/607
Just an FYI, if you add ``--help`` to the command line, the parsed values are posted as part of the help menu. So, in the *corrected* case, *with* the right...
``help(ants.create_ants_transform)``
How did you derive the original transform parameters?
My guess is that the open3d affine parameters aren't directly portable into the ANTs/ITK transformation framework. I would ask over on the ITK discourse forum if anybody has any experience...
You're setting up your initial partitioning of the masked region with the three probability images (I'm guessing 1: amygdala, 2: hippocampus, and 3: cortex. Just probing the values in the...
If this is that degenerate case, it shouldn't go past initialization because the distribution for the third label is unknown without any representative samples. Perhaps a better use of time...
Okay @cookpa , see if the above proposed solution works for you. I did a brief look to figure out why it worked before but I didn't see anything obvious.