You need to use
1 -1 0 0
1 0 -1 0
On 8/19/15 11:38 AM, Lim, Lena wrote:
Dear experts,
I have 3 groups (A, PC, HC) and IQ as cov and I tried to do a F test on the
cortical thickness but the output doesn't make sense as it covered the whole
brain (please see attached).
I used the following commands:
mris_preproc --fsgd 3gps_IQ.fsgd --cache-in thickness.fwhm10.fsaverage --target
fsaverage --hemi lh --out lh.3gps_IQ.thickness.10.mgh
mri_glmfit --y lh.3gps_IQ.thickness.10.mgh --fsgd 3gps_IQ.fsgd doss --C
3gps_IQ_Ftest.mtx --C 3gps_IQ_AbusedmorethanHC.mtx --C
3gps_IQ_AbusedmorethanPC.mtx --C 3gps_IQ_PCmorethanHC.mtx --surf fsaverage lh
--cortex --glmdir lh.3gps_IQ_thickness
mri_glmfit-sim --glmdir lh.3gps_IQ_thickness --cache 2 abs --cwp 0.05
--2spaces
F contrast:
1 -1 0 0
0 0 -1 0
What went wrong? Please kindly help...
Many thanks,
Lena
-----Original Message-----
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: 04 August 2015 19:52
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] contrasts
The F would be
1 -1 0 0
0 0 -1 0
Your t-contrasts are correct (you don't need to do both directions)
On 08/03/2015 03:40 PM, Lim, Lena wrote:
Hi experts,
I have 3 groups: (A, PC and HC) and 1 covariate: IQ. For a DOSS file,
how should I define the F contrast? Would it still be: I -1 0 ?
1
0 -1
And would the t contrast for say A>PC be: 1 -1 0 0 and for A < PC be
-1 1 0 0 etc
Many thanks,
Lena
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