Dear Doug,

I am sorry i got confused between the thickness files lh.thickness and aparc.stats file i thought thickness measures from aparc.stats file is used to look for differences in thickness. I tried mriglm command line version and it worked so thanks, I am sorry for the confusion.

Thanks again,

venkat

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From: Douglas N Greve [mailto:greve@nmr.mgh.harvard.edu] Sent: Fri 5/7/2010 11:35 AM To: Rajagopalan, Venkateswaran Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] fsgd file creation

How are you going to do the test? I'm not sure what the stats file has to do with the fsgd file ...

doug

Rajagopalan, Venkateswaran wrote:

Dear All,

I am new to freesurfer, i am sorry i am confused so i am posting this message. I have two groups i want to compare cortical thickness values in all the areas reported in aparc.stats file between these two groups. So i started creating my fsgd file the problem i have is with the contrast matrix for instance i have 35 regions where thickness values are reported so i have 2*(35+1)=72 contrasts so do i need to specify each of them individually what i mean iS for instance if i am comparing lh.temporalpole (let us assume this is my first variable) so my contrast is 0 0 1 -1 0 0 0 0 ........(72 numbers) and i name this contrast as group-x-tempole.mtx then my second variable is lh.cuneus then my contrast matrix is 0 0 0 0 1 -1 0 0 0 .....(72 numbers) then i name it as group-x-cuneus.mtx. Is this the way to create or is there a simple way to this. Bottomline is i want to compare the differences in cortical thickness values between two groups in all the regions reported in aparc.stats.

Thanks

venkat

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