Alexandru,
I can't say i've seen this done before, but i think what you would do is use mri_surf2vol to map the sig.mgh file back into your subject volume space. you would need a register file to do this, but it is included with a standard freesurfer recon. that is, the surface data is on the 'fsaverage' surface, and each subject has a talairach.xfm registration file created for it (and fsaverage is in talairach space). then you would use mri_binarize to threshold that volume down to just the voxel values at threshold, then find the remaining voxels and use those as the seed. you can save files with a .nii extension, for import into fsl's tools. see mri_surf2vol --help and mri_binarize --help
Nick
On Wed, 2008-12-10 at 17:19 +0000, Alexandru Hanganu wrote:
Hello All,
Can you please tell me, when we get the results from QDEC {$SUBJECTS_DIR/qdec/Untitled/lh-Avg-thickness-age-Cor/sig.mgh} how can we threshold the image and include it as a seed into FSL tractography ? What command line should I use ?
Thank you for your help, Best regards, Alexandru Hanganu. ___________________________________ Department of Neurology, Schleswig-Holstein University Hospital, Kiel Campus Arnold-Heller-Str. 3, building no. 41 D-24105 Kiel, Germany.
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