On 01/07/2017 06:19 AM, Ling Zhao wrote:
*Dear experts,*
1.From the FreeSufer wiki we all knows all of the processing and the generated files are in the Talairach (MNI305) coordinate. The FreeSurfer http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FreeSurferoperates in a conformed space, which is different from the original structural image space that it has received as an input. If I want to use the generated surfaces or labels as masks (which is inTalairach space) for DTI probtrackx (which is need in diffusion space). How should I do?
Which wiki page says that? Actually all of the processing is done in native (albeit "conformed") native anatomical space. To use the labels in a DTI analysis, you'll need to register the DTI (low-b volume) to the freesurfer subject (bbregister), then use mri_label2vol to map a segmentation (eg, aparc+aseg.mgz) into the DTI space. See the multimodal tutorial.
2.In your wikiI see the information as following:
“*Average Surface Construction*
The average surface is constructed by computing the Talairach (MNI305) coordinate at each vertex for each subject (based on the talairach.xfm matrix for that subject). These coordinates are then mapped into the common surface space and averaged together so that the coordinate of a vertex in the common surface space is the average of the Talairach coordinates from the corresponding surface locations of the individuals. This results in the average surface overlaying nicely on the average (MNI305) volume. ”
Is the MNI305 in the MNI space? Can you tell me the meaning of the MNI305 in “Talairach (MNI305) coordinate”?
After the average surface overlaying nicely on the average (MNI305) volume. Is the average surface in the MNI space or in the Talairach space / common surface space?
It is in MNI305 space which is defined by the MNI305 average brain. This is similar to the MNI152 space (the "standard" MNI space) but not identical. We also report a "Talairach" space coordinate. This is computed by applying a formula to the MNI305 coordinates
Best wishes
Ling Zhao
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Center for the Study of Applied Psychology, Key Laboratory of Mental Health and Cognitive Science of Guangdong Province, School of Psychology, South China Normal University, Guangzhou 510631, P. R. China
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