Does the nifti head (image orientation) matter?

[alizezhu]

Hi Fabian,
I wonder if the calculation and augmentation in nnUNet takes into consideration the NIFTI data orientation? I understand the resolution is taken care of. Does it matter, can I just write the data orientation with an matrix of [1 0 0; 0 1 0; 0 0 1] into the NIFTI file? Of course I also write annotation file in the same way.
Thanks in advance!

[FabianIsensee]

nnU-Net ignores data orientation. The only geometry information it uses is the spacing. You need to provide image and the corresponding segmentation in the same orientation (voxel arrays must be aligned!) for nnU-Net to work correctly

[alizezhu]

thanks a lot for your answer!