Extract morphometric index from T1 and DWI using Schefer400 atlas

[Yunhong Wang]

Hi all,

I am working with tht extraction of morphometric analysis using Schefer400-7net atlas.

First, the FreeSurfer reconstruction was performed. Individual .annot files were generated using the Schafer400-7net .gcs files and then individually parceled to extract surface area, cortical thickness, gray matter volume, Gaussian curvature, and mean curvature.

Second, I'm going to use DWI images to generate fractional anisotropy and mean diffusivity and also want to parcel them to Schefer400-7net to generate corresponding index like the way of T1 images for each subject. I wonder if this is feasible?

Best,

Yunhong

[Thomas Yeo]

Hi Yunhong,

If you have the Schaefer parcellation annot for individual participants AND you have the diffusion metrics sampled onto the individual anatomical surface, you can call "mris_anatomical_stats" from FreeSurfer on the command line. 

However, most diffusion measures are typically defined in white matter. I am not sure it makes sense to compute FA and MD values for cortical parcels (like Schaefer).

Regards,

Thomas

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