Re: [Freesurfer] Problems Extending the Pial Surface

that looks like a big temporal lobe bias field to me. Is the WM in the temporal lobes significantly darker than 110? I can't tell if some of the stuff in e.g. the left medial temporal lobe is WM or GM. Try putting some control points in regions where the intensity is in say [95, 110) and see if

Re: [Freesurfer] cannot find subject

Hi Heidi can you give us the full screen output and exact command you are running? And what shell are you using? In csh/tcsh you can have an env variable be superseded with a set command. For example: setenv SUBJECTS_DIR right set SUBJECTS_DIR=wrong will cause getenv to get wrong. Also, try

Re: [Freesurfer] Non-parametric correlation between FC and neuropsychological/volumetric outcomes

External Email - Use Caution I'm running the follow command lines: 1) mri_glmfit --y ces.nii.gz --cortex --surf fsaverage rh --glmdir MMSE.wls --nii.gz --fsgd g1v1_MMSE.fsgd dods --C intercept.mtx --C slope.mtx --eres-save 2) mri_glmfit-sim --glmdir MMSE.wls --perm 1000 2.0 abs