Hi all, I’m new to both freesurfer and fMRI, and after reading some related posts on the forum I still can't complete this task so would appreciate any help or suggestions.
I’m trying to import the eccentricity and polar maps from a freesurfer retinotopy analysis into matlab. My goal is to have a matlab matrix which specifies the eccentricity and polar angle (or separate matrices for polar and ecc.) of every voxel in V1, which I can then link to my MVPA analysis (done with Matlab and SPM). So I also need to link the eccentricity/polar coordinates to the coordinates of the voxels as they are organised in SPM (as a 3D matrix with the location of each voxel in the matrix corresponding to its location in the structural MRI volume). So far, I’ve located the freesurfer matlab toolbox and used MRIread to read in the eccentricity and polar .nii.gz files. But because of my limited freesurfer knowledge, I'm unsure of the next step. Which of the freesurfer output files/variables do I actually want? I see there are real and imaginary components separately for the left and right hemispheres, for both eccentricity and polar. How can I combine these so that I end up with a 3D matrix containing the eccentricity (or polar) value for each voxel, with the location of the voxels in the 3D matrix corresponding to its location in the MRI volume (as in SPM)? thanks in advance, any suggestions are very welcome Susan _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
