[Freesurfer] Fw: mri_watershed error, White Matter Intensity too high

On Friday, April 18, 2014 11:43 PM, shahrzad kharabian shahrzad_k...@yahoo.com wrote: Dear experts, I have a encountered an Error while doing skull-stripping using freesurfer on my T1 weighted images, using mri_watershed I am using the following command: mri_watershed -atlas

[Freesurfer] Fw: Fw: mri_watershed error, White Matter Intensity too high

On Sunday, April 20, 2014 2:25 AM, Bruce Fischl fis...@nmr.mgh.harvard.edu wrote: Hi Shahrzad can you cc the list so that others can answer? thanks Bruce On Sat, 19 Apr 2014, shahrzad kharabian wrote: Hi Bruce, True, I am trying to use Freesurfer skullstripping as a first step to

[Freesurfer] rmanova contrast file error

Dear Experts, I am running a rmanova using FSGD file and mri_glmfit. I have done the mris_preproc step, and am currently trying to do the mri_glmfit step. I keep getting an error that appears to be related to the contrast files and matricies (highlighted in yellow below) I have also

Re: [Freesurfer] Fw: Fw: mri_watershed error, White Matter Intensity too high

Try running mri_normalize first Cheers Bruce On Apr 19, 2014, at 9:21 PM, shahrzad kharabian shahrzad_k...@yahoo.com wrote: On Sunday, April 20, 2014 2:25 AM, Bruce Fischl fis...@nmr.mgh.harvard.edu wrote: Hi Shahrzad can you cc the list so that others can answer? thanks Bruce