Re: [Freesurfer] mri_watershed mask and skull surfaces

2015-07-21 Thread Bruce Fischl
Hi Sam if you want us to help you, you need to provide us with the full command line and screen output (at least!) cheers Bruce On Tue, 21 Jul 2015, Sam Zorowitz wrote: Hi all, I am using mri_watershed to create skull surfaces for a cohort of subjects for whom we were unable to collect a F

[Freesurfer] mri_watershed mask and skull surfaces

2015-07-21 Thread Sam Zorowitz
Hi all, I am using mri_watershed to create skull surfaces for a cohort of subjects for whom we were unable to collect a FLASH sequence. To improve the estimation of the inner skull layer, I would like to use edited brainmasks. However whenever I supply the -mask flag, and only when I supply -mask