[Freesurfer] Viewing AFNI data on FreeSurfer surface: The Basics

Hi all, Sorry if this is a REALLY dumb question, I'm a total newbie. I'm trying to view some fMRI data (preprocessed and analyzed in AFNI) on a surface in FreeSurfer. I have the subject's completed surface and analyzed fMRI files all ready to go, but I have no idea how to register them together

[Freesurfer] tksurfer: Load multiple overlays from command line

Hi all, What would be the syntax for loading multiple significance maps into different tksurfer overlay layers from the command line? I tried: tksurfer D14 lh.inflated -overlay lh.Tstat1.mgh -overlay lh.Tstat2.mgh --overlay lh.Tstat3.mgh And tksurfer D14 lh.inflated -overlay lh.Tstat1mgh lh.

[Freesurfer] Define ROI in individual surface based on area around a Talairach coordinate?

Hi all, Is there perhaps a tksurfer tutorial for how to define and/or draw an ROI on an individual's surface by dilating out from a given Talairach coordinate? Freesurfer's volume registration is excellent and we'd like to use the correspondence to those normalized Talairach coordinates. Any i

[Freesurfer] Best color/overlay settings for viewing retinotopy data in tksurfer?

Hi all, Just wondering if any retinotopy people have a favorite color scale/overlay setting that they use to display the data in tksurfer? Please let me know! Thanks! -Elise * Annelise Dickinson Post-Bac IRTA Laboratory of Brain and Cognition,

[Freesurfer] FMRI values at surface vertices?

Hi all, Sorry if this is a dumb question-is there any way to create a Matlab-readable (e.g. Text) file containing the fMRI values at each surface vertex of a painted surface? Please let me know if you have any idea! Thank you so much, Elise

[Freesurfer] Registration of talairach and original space?

Hi all, We have used mrivol2surf with the output of bbregister to transform an individual subject's fmri data into the coordinates of the anatomical used to generate that subject's surface. We are happy with the accuracy of this registration. However, we are stuck because as far as we know bbreg

[Freesurfer] ERROR "Could not determine file type" during mri_vol2surf AND opening a talairach.xfm in tkmedit

Hi all, Hopefully this is not too stupid of a question. Something seems to have happened to one of our subjects' surface data, such that when I try to resample the volume Wedges6_r1_D10_0_pi3_1#0_Coef.nii onto subject D10's surface, I get the following error: >> mri_vol2surf --mov Wedges6_r1_D

Re: [Freesurfer] ERROR "Could not determine file type" during mri_vol2surf AND opening a talairach.xfm in tkmedit

[s...@nmr.mgh.harvard.edu] Sent: Thursday, June 10, 2010 5:14 PM To: Dickinson, Annelise (NIH/NIMH) [F] Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] ERROR "Could not determine file type" during mri_vol2surf AND opening a talairach.xfm in tkmedit Hi Elise, can you try

Re: [Freesurfer] ERROR "Could not determine file type" during mri_vol2surf AND opening a talairach.xfm in tkmedit

t me wondering. Please let me know if you have any insights! Thanks so much again! -Elise From: Sita Kakunoori [s...@nmr.mgh.harvard.edu] Sent: Thursday, June 10, 2010 5:14 PM To: Dickinson, Annelise (NIH/NIMH) [F] Cc: freesurfer@nmr.mgh.harvard.edu Subje