[Freesurfer] binarize white matter mask

2017-08-16 Thread Elizabeth Dao
Dear experts, I need a binarized wm mask for my analysis. The wm.mgz volume includes subcortical structures so I would like to use the aseg.mgz volume. I was hoping someone could give me instructions (command-line) on how to binarize aseg.mgz so that the wm=1 and everything else is 0. Thank you i

[Freesurfer] asegstats2table error

2017-07-06 Thread Elizabeth Dao
Dear experts, I have completed recon-all with no errors. Now I would like to use the 'asegstats2table' command but I've received the error below. I would appreciate any help in solving this problem. I am using FreeSurfer v6.0.0 on a Linux CentOS machine. [TLA@CogmobCentOS MCI]$ asegstats2table --