Dear All,
In probtrackx it is possible to use a seed from a freesurfer cortical label, as shown at http://www.fmrib.ox.ac.uk/fsl/fdt/fdt_surface.html.
Under step 1 it is explained how to bring the label from freesurfer to diffusion space. At the end of step 1, one has a freesurfer2fa.mat file that is used in probtrackx, under step 3. But I was wondering whether it is possible to test if this transformation .mat file to diffusion space is correct, just to know that nothing went wrong along the way until here? Is it for example possible to view with fslview the original freesurfer label file in diffusion space, incorporating the transformation matrix freesurfer2fa.mat, to see whether the cortical label is really placed at the right position? I tried using the --xfm freesurfer2fa.mat command but this seems not possible in fslview.
Thank you very much in advance for your help!
Ruthger Righart (PhD)
Institute for Stroke and Dementia Research (ISD)
Klinikum der Universität München
Max-Lebsche-Platz 30
81377 Munich | Germany
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