Have you tried MRICONVERT or dcm2nii (part of Mricron)....
http://lcni.uoregon.edu/~jolinda/MRIConvert/
http://www.cabiatl.com/mricro/
Both of those have the ability to extract these bvals/bvecs directory
from the siemens private tag--- presuming your WIP DTI sequence isn't
much different from the ones we've used, it should be able to pull the
bvecs/bvals directly to text files in an FSL friendly format. The
"theoretical" b-matrix that is implemented in the scanner console can
get affected based on scan angulation and other factors, so these tags
generally support the ACTUAL b-matrix applied as opposed to the one
specified in the WIP itself (which the scanner may not be able to
actually obtain)....
On Wed, Oct 5, 2011 at 5:23 PM, West, John D. <[log in to unmask]> wrote:
> Hello.
>
> We are currently running a WIP DTI sequence on our Siemens systems for which the developer recommends using the b-matrix located in the dicom header for calculating the diffusion tensor. Is there a way to run dtifit using this matrix rather than the bval and bvec files? Thanks for your help.
>
> -John West
>
--
David A Gutman, M.D. Ph.D.
Assistant Professor of Biomedical Informatics
Senior Research Scientist, Center for Comprehensive Informatics
Emory University School of Medicine
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