Re: [Freesurfer] mri_glmfit mask.mgh for mri_surfcluster

directly with the --clabel option > > > On 05/14/2017 05:45 AM, Ryan Muetzel wrote: >> Dear Experts, >> >> This is partially a follow-up question to another thread related to >> the mask.mgh generated by mri_glmfit >> (http://www.mail-archive.com/freesurfer

[Freesurfer] mri_glmfit mask.mgh for mri_surfcluster

Dear Experts, This is partially a follow-up question to another thread related to the mask.mgh generated by mri_glmfit (http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg50691.html ). We would like to use the

[Freesurfer] v6 Hippocampal subfields on a cluster

Dear Experts, I am trying to run the Hippocampal and brainstem MCR code on a cluster. When I schedule a job with anywhere between 2-4GB of RAM per dataset (i.e., per core), I am getting both java and matlab errors (from java, it is a GC out of memory error, and from matlab it is a vague segme

[Freesurfer] localGI & Matlab runtime?

Hello, I was wondering if anyone has compiled the localGI code with the matlab runtime & integrated with recon-all? We have a lot of data that we'd like to run through the localGI stream, however we have a limited number of matlab licenses. Are there other easy ways to "parallelize" this (i.e

[Freesurfer] uniform sampling of the sphere

Thanks in advance! Ryan Muetzel University of Minnesota ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is add

[Freesurfer] total brain volume correction

Hello, I was curious if anyone had specific recommendations for correcting ROIs for total brain volume/ICV. From what I can tell, some groups correct each ROI by computing a ratio of ROI/total_brain_volume. Other groups, however, enter total brain volume as a covariate in their statistical mod

Re: [Freesurfer] wmparc/white matter problems?

look in that area? Ryan Muetzel wrote: Hi Doug, The images are attached. Thanks again for your help! -Ryan On Dec 6 2007, Doug Greve wrote: Can you send a pic? Ryan Muetzel wrote: Hello, We are running Freesurfer version 4.0.1 and seem to be having problems with the white matter/gray

[Freesurfer] wmparc/white matter problems?

Hello, We are running Freesurfer version 4.0.1 and seem to be having problems with the white matter/gray matter parcellation borders. When viewing the pial and the main white surfaces in tkmedit, everything looks good against the t1 brain. However, when the wmparc is loaded on, we are seeing t