Hey Lilla,
I found the error that I made in the original command I posted; I forgot to
switch the --targ & --mov inputs in the first mri_vol2vol command. Here's the
corrected version that works for me:
mri_vol2vol --targ $FREESURFER_HOME/subjects/cvs_avg35/mri/norm.mgz \
--m3z
$SUB
Hi Doug,
This seems correct. What do you mean by "not so great"? Could you send
files to look at?
Lilla
On Tue, 31 Jan 2017, Douglas Merkitch wrote:
Hello,
I'm reposting the following just in case anyone has any ideas. Any input would
be greatly appreciated!
Thank you very much for the sugge
Hello,
I'm reposting the following just in case anyone has any ideas. Any input would
be greatly appreciated!
Thank you very much for the suggestion. Here then are my attempts at putting
what you said into two sequential commands:
mri_vol2vol --targ $SUBJECTS_DIR/$subj/mri/norm.mgz \
Hello Lilla,
Thank you very much for the suggestion. Here then are my attempts at putting
what you said into two sequential commands:
mri_vol2vol --targ $SUBJECTS_DIR/$subj/mri/norm.mgz \
--m3z
$SUBJECTS_DIR/$subj/cvs/combined_tocvs_avg35_elreg_afteraseg-norm.m3z \
--noD
Hi Doug,
In order to compute and apply the inverse of an m3z transform you would
need to use the --inv-morph flag instead of the --m3z and reverse your
targ and mov inputs. With the current implementation of mri_vol2vol though
I do not think that you can specify the order of the transforms (w
Hello Freesurfer experts,
>From your wiki page, I understand how to normalize volumes in subject
>diffusion space to the CVS template:
mri_vol2vol --targ $FREESURFER_HOME/subjects/cvs_avg35/mri/norm.mgz \
--m3z
$SUBJECTS_DIR/$subj/cvs/combined_tocvs_avg35_elreg_afteraseg-norm.m3z \
