Hi Doug,
I was wondering if anyone could offer some insight into a freesurfer challenge I've encountered. I have run a resting connectivity analysis using the fsfast stream and now have a pcc.nii.gz map for each subject that is in fsaverage space (and loads just fine using tksurfer with fsaverage). Without mapping back to each subject's native space, is there a way to just use the fsaverage aparc to extract the mean pcc value for each subject by parcellation? I initially tried the following:
`mris_anatomical_stats -a fsaverage/label/lh.aparc.annot -t fsaverage/surf/<subject pcc map in fsaverage space> -b fsaverage lh'
and got an error that fsaverage/mri/wm.mgz could not be found. I followed an old post on the listerv and just put in a random wm.mgz file from a subject, assuming that anatomical stats wouldn't be calculating any distances if I specified a surface file.
After I tried the same command again, I got this error:
"ERROR: subject fsaverage is an average subject. mris_anatomical_stats cannot currently be used with an average subject. "
Is there a better way to do this that I might be missing? I don't know if it complicates things given that the pcc files are saved as .nii.gz, even though they are surface overlays?
Any suggestions would be greatly appreciated!
Sincerely, Tori