[Freesurfer] mri_cc

2016-05-27 Thread Arash Nazeri
Dear all, mri_cc does not seem to be working properly to parcellate corpus callosum. As per one of the previous posts, there is a bug in the current release of mri_cc. However, the link provided in the same thread for an updated version of mri_cc is no longer existent. Our cluster runs on 64bit Ub

[Freesurfer] mri_cc

2016-05-31 Thread Arash Nazeri
Dear Freesurfer experts, Sorry for resending this post. mri_cc does not seem to be working properly to parcellate corpus callosum. As per one of the previous posts, there is a bug in the current release of mri_cc. However, the link provided in the same thread for an updated version of mri_cc is n

[Freesurfer] Projecting voxel intensities to a surface file

2013-10-22 Thread Arash Nazeri
Dear all, I'm new to the freesurfer. I want to project surrounding cortical voxel values (intensities) from a given map (e.g. mean diffusivity map in a nifti format) to a surface file (e.g. mid-cortical surface in a gifti fromat) to generate scalar maps like ?h.thickness for group-wise statist

Re: [Freesurfer] Projecting voxel intensities to a surface file

2013-10-23 Thread Arash Nazeri
Sorry. I meant to do that. Original Message From: Bruce Fischl To: Arash Nazeri Sent: Wed, Oct 23, 2013 8:25 am Subject: Re: [Freesurfer] Projecting voxel intensities to a surface file Hi Arash can you cc the list on this type of email so that others can answer? Particularly

[Freesurfer] mri_vol2surf

2013-12-01 Thread Arash Nazeri
Hi all, I wanted to make sure how one could assign intensities from the subjacent white matter voxels to the cortical surfaces using mri_vol2surf. Based on the documentation page --projfrac, if used with negative values, would assign white matter values to the surface. I was wondering if this

Re: [Freesurfer] mri_vol2surf

2013-12-02 Thread Arash Nazeri
Thank you very much for all the help. > On Dec 2, 2013, at 11:27 AM, Douglas N Greve > wrote: > > >> On 12/01/2013 11:40 PM, Arash Nazeri wrote: >> Hi all, >> >> I wanted to make sure how one could assign intensities from the >> subjacent white ma