Hello, I am hoping that someone can help me to solve my orientation/angle acquisition problem:
1) I have an EPI oblique slice in Analyze format with incorrect orientation/angle acquisition information in the .hdr file (no .mat file) 2) I have a distorted image of the same slice in Analyze format with the correct orientation/angle information in the .hdr/.mat files 3) I would like to change the .hdr/(.mat?) file of 1) to conform to the orientation/angle specs of 2).
I have tried: 1) Replacing 1).hdr w/ 2).hdr--incorrect orientation; image off center; same as if kept 1).hdr 2) Replacing 1).hdr w/ 2).hdr and 2).mat--correct slice angle, image flipped -y and possibly -x? 3) mri_convert <input> <output> --iid -1 0 0 -ijd 0 1 0 -ikd 0 0 1 where <input> = 1).img, 2).hdr, 2).mat --lost slice angle, correct orientation
Any tips? What exactly do the .hdr and .mat files contain?
Susie