Re: [Freesurfer] Freesurfer with whole brain T1 and partial coverage FLAIR

2015-02-18 Thread Bruce Fischl
Hi Ajay if it covers the whoe brain you might be ok, try it and see how it goes Bruce On Wed, 18 Feb 2015, Ajay Kurani wrote: Hello Freesurfer experts,    I have a question regarding the use of the -T2 and -FLAIR flags in freesurfer.  I have 2 scans: 1 whole brain MPRAGE and 1 partial brain

[Freesurfer] Freesurfer with whole brain T1 and partial coverage FLAIR

2015-02-18 Thread Ajay Kurani
Hello Freesurfer experts, I have a question regarding the use of the -T2 and -FLAIR flags in freesurfer. I have 2 scans: 1 whole brain MPRAGE and 1 partial brain FLAIR (bottom of cerebellum/brainstem gets cut off on some subjects). I wanted to see if freesurfer would still be able to run corre