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Hello again, concerning my question yesterday about how to measure the volume of the grey/white matter in the frontal/parietal/occipital/temporal lobes; is SIENA able to do this kind of computation? thank you in advance for your help! roberto On Mon, Jun 29, 2009 at 2:10 PM, roberto toro <[log in to unmask]> wrote: > Hello! > I'm measuring the total volume of grey and white matter in the frontal, > parietal, occipital and temporal lobes in a bunch of subjects (T1W). But I > am not sure that my method is the most appropriate... > Here's what I do: > > 1. BET the subject > 2. FLIRT MNI152_T1_2mm_brain to subject_bet and save the transformation to > affine.mat > 3. FNIRT MNI152_T1_2mm (with skull) to subject (with skull) and save the > warp > 4. I have an atlas in MNI152 space with labels for the four lobe (left and > right hemispheres), diencephalon, pons and cerebellum. I ApplyWarp the warp > from step 3 to this atlas > 5. FAST subject_bet > 6. I wrote a command to count the number of grey and white matter voxels in > each of the lobes (using the FASTed subject and the warped atlas). > > In particular, I'm a bit uncomfortable transforming the atlas into the > subject instead of transforming the subject into the atlas, but inverting > the warp was taking too much time. > > Thank you for your help! > > cheers, > roberto >