Re: [Freesurfer] issues with -T2pial option in v.5.3

2017-02-20 Thread Antonin Skoch
ct: [Freesurfer] issues with -T2pial option in v.5.3 Hi everyone, I am using Freesurfer version 5.3. I tried to refine the pial surfaces by using -T2pial option: recon-all -subjid $SUBJ -T2/SUBJECT_DIR/$SUBJ/mri/orig/T2raw.mgz -T2pial -autorecon3 This step was helpful - e.g. it removed ni

Re: [Freesurfer] issues with -T2pial option in v.5.3

2017-02-20 Thread Matt Glasser
rvard.edu> Date: Monday, February 20, 2017 at 12:26 PM To: <freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] issues with -T2pial option in v.5.3 Hi everyone, I am using Freesurfer version 5.3. I tried to refine the pial surfaces by using -T2pial option: recon-all -subjid $SUBJ -

[Freesurfer] issues with -T2pial option in v.5.3

2017-02-20 Thread Petr Bednarik
Hi everyone, I am using Freesurfer version 5.3. I tried to refine the pial surfaces by using -T2pial option: recon-all -subjid $SUBJ -T2/SUBJECT_DIR/$SUBJ/mri/orig/T2raw.mgz -T2pial -autorecon3 This step was helpful - e.g. it removed nicely residuals of venous sinuses, but in some