Hi all,
I am using freesurfer 7.2, I have mne1.0 working.
Iāve used an old script that I inherited for the freesurfer processing, but if I try to follow some examples (like this one), but I am missing the fsaverage/bem/ folder. I now have all the files and folders I need for the freesurfer MRI processing of my subject data, but not the fsaverage in my project directory. I did a quick search of the mne documentation, but I donāt see how this is created. Can anyone point me in the right direction?
fsaverage does have the following directories
label mri mri.2mm scripts surf xhemi
and Iāve used it for other things, for example the labels and surf files.
The BEMoutput directory should then appear in your subjects directory.
To be able to use them with MNE I simply rename the files to āouter_skull.surfā, āouter_skin.surfā, and āinner_skull.surfā.
Subsequent to that, these files must be placed in a directory called ābemā into the Freesurfers recon-all -all output directory.
Hi all,
Thank you for your suggestions. I havenāt yet had time to try them out!
Bianca, what would you use in yourMRIfilename.nii.gz for the fsaverage brain?