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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