Dear all,
I am trying to convert my DTI image which was previous resampled to CVS space from an .mgz format to a .nii.gz format. When I resampled to CVS space I used the nearest interpolation.
I used for converting this .mgz image to .nii.gz the mri_convert as you can see below:
mri_convert --in_type mgz --out_type nii --out_orientation RAS /media/2Tra/Antonella_2011/DTI_FS/dtrecon_cvs/C01_cvs/C01_dti/fa-masked.ANAT+CVS-to-avg35.mgz \ /media/2Tra/Antonella_2011/DTI_FS/dtrecon_cvs/C01_cvs/C01_dti/fa-masked.ANAT+CVS-to-avg35.nii.gz
I understood that --out orientation RAS states that I am flipping the image. Do I need to use this option? Even if I am using or not I see my image is having different direction than the .mgz image. Also while running with the option --out orientation RAS I saw that the program is doing a triliniar interp and I don't want to resample anymore my iamge just to converte this from mgz to nii.
What is the best way I should do it?
Thank you. Antonella