[Freesurfer] Using QDEC ROIs to extract text files of surface areas

2012-05-30 Thread Cynthia Elisabeth Krafft
Hello, Sorry for the newbie question. I completed a group analysis in QDEC and drew a ROI, which I saved and mapped to the individual subjects. I'm interested in getting text output of the surface area for each individual within that ROI. Here is an example of the command that I ran for one per

[Freesurfer] Manual editing of segmentation

2012-04-12 Thread Cynthia Elisabeth Krafft
Hello, Sorry for a newbie question. If we have to edit the segmentation (and all that we are interested in investigating is the volumetric data), what step should I run after that? Is it necessary to run "recon-all -autorecon2 -autorecon3" or is there some less time-consuming processing that wi

[Freesurfer] Motion in anatomical images

2011-11-17 Thread Cynthia Elisabeth Krafft
Hello, I am wondering whether there is any way to compensate for motion in anatomical images (for the purposes of salvaging data for cortical thickness analysis)? If not, is there a general rule of thumb or some way to tell how much motion is too much for this type of analysis? Or is it more of