The projfrac function might not be working in the way that you think. It might not actually be re-running anything. Did preproc-sess finish faster than you would have expected? You can try deleting the projfrac output and re-running. You can also run preproc-sess with -force, but this will force it to re-run everything. If you want to use multiple project fracs, then you should copy the functional tree to a new location (if you use -p with cp, it will copy the modification time, which will make preproc-sess run faster).
On 2/28/19 12:55 PM, Nasiriavanaki, Zahra wrote:
Dear Freesurfers
Hi
I was trying to look at the activation in different cortical layers in a _single subject_.
I ran my preproc-sess command three times, once without using -projfrac flag, once -projfrac 0.5 and lastly -projfrac 0.2
The activation patterns are exactly the same.
My voxel sizes are 1.1*1.1*1.1 .
My question is:
1-Is it normal that the activations do not change at all the more I get closer to white matter?
2-when I use -projfrac 0.2 , does it mean that I am averaging the activation between white matter layer to 0.2 of gray matter layer? Or is it averaging the activation between pial surface to 0.2 gray matter?
I hope my questions are clear.
Thanks
Mona
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