Hi Tessa, you can use mri_vol2vol passing it the 4D time series volume
and the BBR registration matrix and --fstarg. You will have to motion
correct the time series (using the template from BBR as the target).
doug
On 10/5/11 6:02 AM, Tessa Dekker wrote:
Hi,
I have used bbregister to register a set of partial volume fMRI time
series to the subject structural (orig.mgz), which worked very well.
I now want to align each volume in each given time series to the
orig.mgz. However, I've only managed to get one resampled volume, the
target volume, out of bbregister at the time, making the full
registration process rather lengthy.
I have tried to align my fMRI time series to the orig.mgz by
specifying the transformation matrices that I got from bbregister
(both register.dat and the fsl compatible flirt.mtx) as input
transformation matrix in various afni and FSL alignment scripts. Up
until now however, none of my attempts have been successful because
all these scripts seem to assume different transformation matrix
conventions than bbregister...?
Any advice on how to successfully align a whole fMRI time series to a
3D (non-standardised) subject scan, preferably using a bbregister
transformation matrix, would be much appreciated.
many thanks,
Tessa
--
Dept. Visual Neuroscience,
UCL Institute of Ophthalmology
11-43 Bath Street
London EC1V 9EL
t.dek...@ucl.ac.uk <mailto:t.dek...@ucl.ac.uk>
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