ah in that case you need to multiply the affine stored in one session's
bbreg with the inverse of the other bbreg from the target session and then
use mri_vol2vol with the composite transform. note: only nearest or
trilinear interp
cheers,
satra
On Tue, Dec 20, 2011 at 12:07 AM, Michael Waskom
OK, cool, I'll look into this for the future.
But back to my original question. If I already have data preprocessed with
several runs, each run motion-corrected within-session, and an affine
registration from each run's space to the anatomical determined by
bbregister, is there any way to use thos
hi michael,
so for each frame of every session you get a bbreg file and the script ends
up aligning the volumes to some reference. all you need to do is propagate
that reference across your sessions. you might for example want this to be
the middle volume of your entire experiment.
cheers,
satra
Sorry, I guess it's not clear what I'm hoping to do.
Because I'm going to use this data for mvpa, I don't want to resample into
1x1x1 voxels or go onto the surface. But I have multiple runs that I want
to use, so I need there to be a voxel-to-brain correspondence across the
different runs.
Michae
It will output a register.dat for each frame. You can extract the frame
from the time series (mri_convert --frame ), apply the reg with
mri_vol2vol or mri_vol2surf, then concatenate the results back into a
time series (mri_concat)
doug
Michael Waskom wrote:
> Hi Satra and Doug,
>
> That script
Hi Satra and Doug,
That script is good to know about. But, from what I can tell, it looks
like it will output a timeseries in the same space as the original template
(each frame gets transformed with a combination of the matrix specifying
its registration to the anatomical and the inverse of the
That may or may not do what you want. I think that version keeps the
functional data in the functional space. It would be better to register
each TR to the anat, then simply sample each TR to the anatomical space
(volume or surface) rather than going back into functional space.
doug
Satrajit G
hey mike,
take a look at:
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mc-bbr
cheers,
satra
On Mon, Dec 19, 2011 at 2:04 AM, Michael Waskom wrote:
> Hi Doug,
>
> Is it possible to use the bbregister parameters to resample a functional
> image such that it is in register wit
Hi Doug,
Is it possible to use the bbregister parameters to resample a functional
image such that it is in register with the anatomical image but retains the
epi geometry? I actually don't care so much about the epi-anat
registration, but what I would like to be able to do is motion correct and
ot
