[Freesurfer] Cortical sheet mask?

I'm new to freesurfer, so I'm hoping this question isn't too obvious. I've searched the mailing list archives and the wiki but haven't found any leads. I'm wondering if there's a way to generate a volume representation of the cortical sheet, based on the data from the white surface and the

[Freesurfer] functional overlay values

Hi everyone Could I divide the values of a functional overlay volume by a known constant in tkmedit or using any other function of freeSurfer? thanks abel LLama Gratis a cualquier PC del Mundo. Llamad

Re: [Freesurfer] Cortical sheet mask?

Hi David, we do generate such a thing called ?h.ribbon.mgz, but note that once you go back into the volume the topology is no longer preserved. cheers, Bruce On Thu, 3 May 2007, David Perlman wrote: I'm new to freesurfer, so I'm hoping this question isn't too obvious. I've searched the ma

[Freesurfer] problem of group analysis

Hello, Group I have a question about mri_glmfit. I can not run this commend on my data. An error "MatrixReadTxT: could not scan value [1] [2] file exists ERROR: loading C age.mat" appeared. I do not know what is wrong. The only warning I saw is "ERROR: cound not find volume $SUBJECTS_DIR/ave

Re: [Freesurfer] symbolic links

Hi Doug, Thanks for your swift reply. When I run your version I always received the error: "limit: descriptors: Can't remove limit" I then deleted the following line in your code: "limit descriptors unlimited " That helped but after 88 subjects I always get on error message now: "88 of 102:

Re: [Freesurfer] symbolic links

Stephan, You can find out how many open files are allowed by a process by typing: limit and look for the 'descriptors' setting. If that is less than 102, then that is likely your problem, and you could try changing the line to: limit descriptors 128 If your current descriptors default is

Re: [Freesurfer] Cortical sheet mask?

You can use ?h.ribbon.mgz, but that is going to be quantized to 1mm, so you'll loose a lot of resolution. David Perlman wrote: I'm new to freesurfer, so I'm hoping this question isn't too obvious. I've searched the mailing list archives and the wiki but haven't found any leads. I'm wonde

Re: [Freesurfer] functional overlay values

We don't have explicit tools to do this, but you can use matlab In matlab, you can load the overlay with a = MRIread('youroverlayfile'); a.vol = a.vol * constant; MRIwrite(a,'yournewoverlay.mgh'); % or use .nii for nifti abel cruz vadell wrote: Hi everyone Could I divide the values of a

Re: [Freesurfer] problem of group analysis

It's having problems reading the 2nd column of the 1st row (ie, [1][2]]). Does your age.mat file have commas in it? If so remove them and try again. doug Wang, Xin wrote: Hello, Group I have a question about mri_glmfit. I can not run this commend on my data. An error "MatrixReadTxT: could

答复: [Freesurfer] ROI of SI cortex

Hello, Rahul Two more questions. 1. How can I get the volumes of subcortical structures, like in the presentation of freesurfer & matlab? I did not find the matlab script to do so. 2. where are the thickness of every voxel saved? Can I access to it and copy data out? Many thanks to you and Doug

Re: ´ð¸´: [Freesurfer] ROI of SI cortex

Hi Xin, For subcortical volumes, check the SUBJECT/aseg.stats file. The thickness question I will leave for the Bruce, Doug and the others. Best, rahul > Hello, Rahul > Two more questions. 1. How can I get the volumes of subcortical > structures, like in the presentation of freesurfer & matlab

RE: [Freesurfer] problem of group analysis

Hi, What was the exact command you were trying to run? Jenni _ From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Wang, Xin Sent: Thursday, May 03, 2007 12:18 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] problem of group analysis Hello, Group I have