Dear experts
I had obtained a ROI through the interaction between factor 1(A,B) and factor 2(C,D,E), the following: I want to detect the difference between C and D in this ROI. Whether it was done using Freesurfer? thanks!
 
Bo Xiang








At 2012-12-02 05:24:18,"MCLAREN, Donald" <mclaren.donald@gmail.com> wrote:
>Bo Xiang got the following Error Message. Attached are the mtx and
>fsgd file. Does anyone what caused the error?
>
>>
>>On Fri, Nov 30, 2012 at 8:28 AM, xiangbo_2010 <xiangbo_2010@126.com> wrote:
>>> Dear Donald McLaren
>>>
>>>        I used the contrast to run, but the error is appear:
>>>
>>> mri_glmfit --y lh.gender_age.thickness.10.mgh --fsgd COMTthreeinteryes.fsgd
>>> dods --C COMTthreeinteryes.mtx --surf fsaverage rh --cortex --glmdir
>>> lh.COMTthree.glmdir
>>>
>>> gdfReadHeader: reading COMTthreeinteryes.fsgd
>>> INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done.
>>> Continuous Variable Means (all subjects)
>>> 0 age 26.2227 11.3891
>>> Class Means of each Continuous Variable
>>> 1 MAC  23.9333
>>> 2 MAD  23.5455
>>> 3 MAE  24.5000
>>> 4 MBC  28.6923
>>> 5 MBD  26.3158
>>> 6 MBE  30.3750
>>> 7 FAC  24.1707
>>> 8 FAD  26.4643
>>> 9 FAE  25.0909
>>> 10 FBC 25.9130
>>> 11 FBD  31.5217
>>> 12 FBE 34.0000
>>> INFO: gd2mtx_method is dods
>>> Reading source surface /media/freesurfer1/CT/fsaverage/surf/rh.white
>>> Number of vertices 163842
>>> Number of faces    327680
>>> Total area         65020.765625
>>> AvgVtxArea       0.396850
>>> AvgVtxDist       0.717994
>>> StdVtxDist       0.193566
>>>
>>> $Id: mri_glmfit.c,v 1.196.2.6 2011/05/05 20:54:25 greve Exp $
>>> cwd /media/freesurfer1/CT
>>> cmdline mri_glmfit --y lh.gender_age.thickness.10.mgh --fsgd
>>> COMTthreeinteryes.fsgd dods --C COMTthreeinteryes.mtx --surf fsaverage rh
>>> --cortex --glmdir lh.COMTthree.glmdir
>>> sysname  Linux
>>> hostname psylab-desktop
>>> machine  x86_64
>>> user     psylab
>>> FixVertexAreaFlag = 1
>>> UseMaskWithSmoothing     1
>>> OneSampleGroupMean 0
>>> y    /media/freesurfer1/CT/lh.gender_age.thickness.10.mgh
>>> logyflag 0
>>> usedti  0
>>> FSGD COMTthreeinteryes.fsgd
>>> labelmask  /media/freesurfer1/CT/fsaverage/label/rh.cortex.label
>>> maskinv 0
>>> glmdir lh.COMTthree.glmdir
>>> IllCondOK 0
>>> ReScaleX 1
>>> DoFFx 0
>>> Creating output directory lh.COMTthree.glmdir
>>> Loading y from /media/freesurfer1/CT/lh.gender_age.thickness.10.mgh
>>> INFO: gd2mtx_method is dods
>>> Saving design matrix to lh.COMTthree.glmdir/Xg.dat
>>> Normalized matrix condition is 82.694
>>> Matrix condition is 73313.7
>>> Found 149926 points in label.
>>> Pruning voxels by thr: 0.000000
>>> Found 149926 voxels in mask
>>> Saving mask to lh.COMTthree.glmdir/mask.mgh
>>> Reshaping mriglm->mask...
>>> search space = 74490.928733
>>> MatrixReadTxT: could not scan value [3][1]
>>>
>>> ERROR: loading C COMTthreeinteryes.mtx
>>>
>>> thanks!
>>>
>>> Bo Xiang
>>>
>>>
>>>
>>>
>>>
>>> At 2012-11-30 06:25:12,"MCLAREN, Donald" <mclaren.donald@gmail.com> wrote:
>>>>Yes.
>>>>
>>>>Best Regards, Donald McLaren
>>>>=================
>>>>D.G. McLaren, Ph.D.
>>>>Research Fellow, Department of Neurology, Massachusetts General Hospital
>>>> and
>>>>Harvard Medical School
>>>>Postdoctoral Research Fellow, GRECC, Bedford VA
>>>>Website: http://www.martinos.org/~mclaren
>>>>Office: (773) 406-2464
>>>>=====================
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>>>>
>>>>On Wed, Nov 28, 2012 at 3:27 AM, xiangbo_2010 <xiangbo_2010@126.com> wrote:
>>>>> Dear Donald McLaren
>>>>>
>>>>>>>  I want to make interaction between factor 1 (A,B) and factor 2
>>>>>>> (C,D,E).
>>>>>>> age
>>>>>
>>>>>>> and  gender (M,F)
>>>>>>>  as covariates, I can get 12 classes: ACM ADM AEM BCM BDM BEM ACF ADF
>>>>>>> AEF
>>>>>>> BCF BDF BEF and make the contrast:
>>>>>>>
>>>>>>> +ACM -ADM 0 -BCM +BDM 0 +ACF -ADF 0 -BCF +BDF 0 age age age age age age
>>>>>>> age age age age age age
>>>>>>> 0 +ADM -AEM 0 -BDM +BEM 0 +ADF -AEF 0 -BDF +BEF age age age age age age
>>>>>>> age age age age age age
>>>>> because the age an