Re: [Freesurfer] MNI coords in GLM cluster

2016-02-16 Thread Douglas N Greve
There is not an easy way to do this. A couple of things you can do: First, convert the MNI152 coordinate to MNI305 coordinate. Then (1) load the cluster into tksurfer or freeview with fsaverage. fsaverage is in mni305 space, so you should be able to plug the coordinates into the RAS space. The

[Freesurfer] MNI coords in GLM cluster

2016-01-31 Thread Bronwyn Overs
Hi Freesurfer mailing list, Is there a way to determine if a specific MNI location is included in any of the clusters that are significant in a freesurfer GLM analysis (after monte-carlo)? We have a specific coordinate of interested from a previous analysis (e.g. -21, 11, -17) and wish to know

RE: [Freesurfer] MNI coords

2006-04-06 Thread Fornito, Alexander
reesurfer@nmr.mgh.harvard.edu Subject: RE: [Freesurfer] MNI coords Hi Alex, you should get the MNI coords for all your subjects - recon-all runs the MNI talairach procedure. Did you move things around on disk? I think there are times that it can't find the xform anymore because it is in a different loca

RE: [Freesurfer] MNI coords

2006-04-06 Thread Bruce Fischl
l: [EMAIL PROTECTED] From: Bruce Fischl [mailto:[EMAIL PROTECTED] Sent: Thu 4/6/2006 11:03 PM To: Fornito, Alexander Cc: freesurfer@nmr.mgh.harvard.edu Subject: RE: [Freesurfer] MNI coords Hi Alex, you should get the MNI coords for all your subjects - recon-all run

Re: [Freesurfer] MNI coords

2006-04-06 Thread Doug Greve
8344 1624 Fax: +61 3 9348 0469 email: [EMAIL PROTECTED] From: Bruce Fischl [mailto:[EMAIL PROTECTED]] Sent: Thu 4/6/2006 11:03 PM To: Fornito, Alexander Cc: freesurfer@nmr.mgh.harvard.edu Subject: RE: [Freesurfer] MNI coords Hi Alex, you should get the MNI c

RE: [Freesurfer] MNI coords

2006-04-06 Thread Fornito, Alexander
: Fornito, Alexander Cc: freesurfer@nmr.mgh.harvard.edu Subject: RE: [Freesurfer] MNI coords Hi Alex, you should get the MNI coords for all your subjects - recon-all runs the MNI talairach procedure. Did you move things around on disk? I think there are times that it can't find the xform anymore be

RE: [Freesurfer] MNI coords

2006-04-06 Thread Bruce Fischl
M To: Fornito, Alexander Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] MNI coords Hi Alex, try "volume scanner coords" for the subjects that don't have the MNI coords. Sorry, I know this is more confusing than it needs to be. In the new version you just specify voxel coords :) Bru

RE: [Freesurfer] MNI coords

2006-04-05 Thread Fornito, Alexander
30/2006 11:41 AM To: Fornito, Alexander Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] MNI coords Hi Alex, try "volume scanner coords" for the subjects that don't have the MNI coords. Sorry, I know this is more confusing than it needs to be. In the new version you j

RE: [Freesurfer] MNI coords

2006-03-29 Thread Fornito, Alexander
8344 1624 Fax: +61 3 9348 0469 email: [EMAIL PROTECTED] -Original Message- From: Bruce Fischl [mailto:[EMAIL PROTECTED] Sent: Thu 3/30/2006 11:41 AM To: Fornito, Alexander Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] MNI coords Hi Alex, try "volume scanner coords

Re: [Freesurfer] MNI coords

2006-03-29 Thread Bruce Fischl
Hi Alex, try "volume scanner coords" for the subjects that don't have the MNI coords. Sorry, I know this is more confusing than it needs to be. In the new version you just specify voxel coords :) Bruce On Thu, 30 Mar 2006, Fornito, Alexander wrote: Hi, I need to manually specify a seed po

[Freesurfer] MNI coords

2006-03-29 Thread Fornito, Alexander
Hi, I need to manually specify a seed point for the corpus callosum cutting plane on some of my images, although some of them don't seem to have the MNI coordiates available through clicking view >information in tkmedit. Not sure why this is the case, since other images do have this info. Specif