Hello, Doug,
 
I ran into an error when I ran mri_glmfit after I finished mris_preproc 
--paired-diff. 
 
ERROR: dimension mismatch between y and x. y has 5 inputs, x has 10 inputs.
 
I think it is because the mris_preproc -paired-diff generated 5 inputs of 
difference within 5 pairs, but my FSGD file still has 10 images. In addition, I 
do not want to include age as regressor. but if I deleted the age column, there 
is no variable. I attach my FSGD file.  Please tell me how to modify the FSGD 
file. 
Thank you,

Xin Wang

________________________________

From: Doug Greve [mailto:[EMAIL PROTECTED]
Sent: Fri 10/12/2007 4:21 PM
To: Wang, Xin
Cc: freesurfer
Subject: Re: [Freesurfer] model for pair-T test


The --paired-diff options just take the difference between adjacently specfied 
inputs. You then set up your design matrix or FSGD file and then run 
mri_glmfit. The --help for mri_glmfit has a lot of info about the glm analysis. 
 If you just want to test whether the difference is 0, you can use the --osgm 
flag (one-sample group mean).

doug

Wang, Xin wrote: 

        Please give me more detailed explanations of how to run mris_preproc 
--paired-diff or (--paired-diff-norm)? and how to setup the GLM after run this 
commend? I could not find needed information on the website. 
        Thank you very much.
         
        Xin
        
________________________________

        From: Doug Greve [mailto:[EMAIL PROTECTED]
        Sent: Fri 10/5/2007 5:20 PM
        To: Wang, Xin
        Cc: freesurfer
        Subject: Re: [Freesurfer] model for pair-T test
        
        
        Can you use the --paired-diff to mris_preproc?
        
        Wang, Xin wrote: 

                Hello, group,
                Could anybody tell me how to do the pair T test and the repeat 
measurement F test? I will really appreciate if you can share the steps and GLM 
of the tests. I am using the old freesurfer group analysis.
                 
                Thank you, very much,
                 
                Xin Wang
                
________________________________


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        -- 
        Douglas N. Greve, Ph.D.
        MGH-NMR Center
        [EMAIL PROTECTED]
        Phone Number: 617-724-2358 
        Fax: 617-726-7422
        
        In order to help us help you, please follow the steps in:
        surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
        
          


-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
[EMAIL PROTECTED]
Phone Number: 617-724-2358 
Fax: 617-726-7422

In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

  GroupDescriptorFile 1
  Title back to back no rp
  Class first
  Class second
  Variables age
  Input APN01R650_4  first   23
  Input APN01R650_5  second  23
  Input APN02G650_4  first   36
  Input APN02G650_5  second  36
  Input APN03L650_3  first   24
  Input APN03L650_4  second  24
  Input APN04E650_2  first   50
  Input APN04E650_3  second  50
  Input APN05T650_2  first   23
  Input APN05T650_3  second  23
  DefaultVariable age
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