Doug, I'd like to get them into the individual's space, but I assume I have to get there by way of fsaverage? Final goal is to have a regional thickness measure for each individual subject. Ruth Carper
________________________________ From: "freesurfer-request@nmr.mgh.harvard.edu" freesurfer-request@nmr.mgh.harvard.edu To: freesurfer@nmr.mgh.harvard.edu Sent: Saturday, October 5, 2013 9:00 AM Subject: Freesurfer Digest, Vol 116, Issue 14
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Message: 1 Date: Fri, 04 Oct 2013 12:21:32 -0400 From: Douglas N Greve greve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] FSL masks applied to Freesurfer surfaces? To: freesurfer@nmr.mgh.harvard.edu Message-ID: 524EEB0C.8050400@nmr.mgh.harvard.edu Content-Type: text/plain; charset=ISO-8859-1; format=flowed
Do you want to transfer them to fsaverage space or to the individual anatomical space? doug
On 10/04/2013 01:42 AM, Ruth Carper wrote:
Hi, I'd like to take some masks that I have in MNI standard space in FSL and map them to Freesurfer surface space. The goal is to extract measures of average cortical thickness (or area or etc) for those regions for each subject. Is there a standard way to do this?
Hi Ruth, run mni152reg for each subject to create a registration from the subject to the 152. Then use mri_label2vol to map the mask into each subject's space.
doug
On 10/05/2013 04:08 PM, Ruth Carper wrote:
Doug, I'd like to get them into the individual's space, but I assume I have to get there by way of fsaverage? Final goal is to have a regional thickness measure for each individual subject. Ruth Carper
*From:* "freesurfer-request@nmr.mgh.harvard.edu" freesurfer-request@nmr.mgh.harvard.edu *To:* freesurfer@nmr.mgh.harvard.edu *Sent:* Saturday, October 5, 2013 9:00 AM *Subject:* Freesurfer Digest, Vol 116, Issue 14
Message: 1 Date: Fri, 04 Oct 2013 12:21:32 -0400 From: Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] FSL masks applied to Freesurfer surfaces? To: freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu Message-ID: <524EEB0C.8050400@nmr.mgh.harvard.edu mailto:524EEB0C.8050400@nmr.mgh.harvard.edu> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
Do you want to transfer them to fsaverage space or to the individual anatomical space? doug
On 10/04/2013 01:42 AM, Ruth Carper wrote:
Hi, I'd like to take some masks that I have in MNI standard space in FSL and map them to Freesurfer surface space. The goal is to extract measures of average cortical thickness (or area or etc) for those regions for each subject. Is there a standard way to do this?
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Ruth Carper