Dear FreeSurfer team, My name is Alex Wilks, an undergrad in the fMRI lab at the University of Michigan. We are trying to learn the ropes of FreeSurfer so that we may be able to perform high resolution fMRI analysis across multiple cortical layers.
So far, I have understood how to generate intermediate layers between the pial and white surfaces of the cortex, however, I’ve hit a roadblock in performing ROI analysis on specific regions of the brain to analyze the amplitude of the BOLD signal across the layers. I was going through your published article titled “Laminar analysis of 7 T BOLD using an imposed spatial activation pattern in human V1” and I believe that the steps you used to collect the data in the “ROI analysis” subsection of your article are what we would like to repeat. Could you walk me through the steps you took to study the BOLD response as a function of cortical depth?
Respectfully, Alex Wilks