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:greve@nmr.mgh.harvard.edu]
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
greve@nmr.mgh.harvard.edu
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