something strange is going on because that mri_vol2vol command has
worked for years. Can you upload your subject's dir to our filedrop?
https://gate.nmr.mgh.harvard.edu/filedrop2
On 4/16/18 5:40 PM, Michelle VanTieghem wrote:
Hi Bruce,
If I *just run the mri_convert command that you provided,
Hi Bruce,
If I *just run the mri_convert command that you provided, it did not
work. The result is the same, with randomly labeled voxels along the
boundaries of GM.
*Am I supposed to run mri_convert and then also run the mri_vol2vol command?
I don't understand what you mean by trilinear sampl
Hi Michelle
from the mri dir I think you can run:
mri_convert -rl rawavg.mgz -rt nearest aseg.mgz aseg.rawavg.mgz
-rl = "reslice like"
-rt = "resample type"
cheers
Bruce
p.s. I think your problem is probably that you used trilinear resampling.
YOu could change the resampling in mri_vol2vol a
Hi Freesurfer experts,
I am trying to convert the aseg back into native space of the anatomical T1
image. I followed the instructions as in the webpage:
https://surfer.nmr.mgh.harvard.edu/fswiki/FsAnat-to-NativeAnat
specifically this line of code:
cd $SUBJECTS_DIR//mri
mri_label2vol --seg aseg.m
