Re: [Freesurfer] SPM ROI to Cortical Thickness

2013-06-05 Thread Ozranov-Palchik, Ola
Hi Doug, Thanks for the response. I'm still a bit confused. Let's just say that I have a vertex index that I determined on the surface of my FS average surface (created by 'make_average_subject'). Now I simply want to find the corresponding vertex index on all the source subjects. How can I do

Re: [Freesurfer] SPM ROI to Cortical Thickness

2013-06-05 Thread Ozranov-Palchik, Ola
Hi Doug, Thank you, again! I decided to try to use the Talairach coordinates from my analysis for ROI extraction. I created an average subject and preprocessed the data (mris_preproc). I obtained the vertex index based on the coordinates from the average subject. Any ideas on how I can now fi

Re: [Freesurfer] SPM ROI to Cortical Thickness

2013-06-05 Thread Ozranov-Palchik, Ola
MNI space. On Jun 5, 2013, at 11:14 AM, Douglas N Greve wrote: what space is your VBM map in? doug On 06/05/2013 11:06 AM, Ozranov-Palchik, Ola wrote: Hi Doug, Thank you for your response! I am still a bit confused about the vol2surf command. I have a volumetric mask with voxels of interest

[Freesurfer] SPM ROI to Cortical Thickness

2013-06-04 Thread Ozranov-Palchik, Ola
Dear FreeSurfer Experts, I was wondering if anyone can advise on the best way to use an ROI mask created in SPM (XjView) to extract cortical thickness values in freesurfer. Thank you in advance for your help! Ola Ola Ozranov-Palchik M.S. Research Coordinator, Gaab Lab Laboratories of Cognitive