For starters, you need to have four classes, HC-Male, HC-Female, CMT-Male,
CMT-Female and not use gender as a variable. Try that. I would also normalize
the age and thickness
On 11/24/2020 12:04 PM, Ambulatorio SNA FEDERICO II wrote:
External Email - Use Caution
Dear Freesurfer team,
I'm running a group analysis where I'd like to compare myelination between two
groups regressing out cortical thickness, age and sex.
My FSGD file is:
GroupDescriptorFile 1
Title Func
Class HC
Class CMT
Variables Age gender
Input fs_VF HC 46 Female
Input fs_RF HC 24 Female
.......
My group.diff.mtx is:
1 -1 0 0 0 0 0
My command line:
mri_glmfit.bin --y rh.t1t2ratio_30_fmed_3sm_decurv.fsavg.mgh --fsgd
age_gender.fsgd --pvr rh.thickness_30.fsavg.mgh --C group.diff.mtx --surf
fsaverage rh --cortex --glmdir
rh_allbrain_t1t2_group_thickness_age_gender.glmdir
But unfortunately I get this wrong message:
RROR: matrix is ill-conditioned or badly scaled, condno = 1e+08
--------------------------------
Possible problem with experimental design:
Check for duplicate entries and/or lack of range of
continuous variables within a class.
If you seek help with this problem, make sure to send:
1. Your command line:
mri_glmfit.bin --y rh.t1t2ratio_30_fmed_3sm_decurv.fsavg.mgh --fsgd
age_gender.fsgd --pvr rh.thickness_30.fsavg.mgh --C group.diff.mtx --surf
fsaverage rh --cortex --glmdir
rh_allbrain_t1t2_group_thickness_age_gender.glmdir
2. The FSGD file (if using one)
3. And the design matrix above
Attempting to diagnose further
SumSq: Min=0.000000 (col 5), Max=146.140350 (col 3)
The scale is much different between columns 5 and 3, you may want to
normalize by subtracting the mean and dividing by the standard deviation.
Column 5, all values are 0
Column 6, all values are 0
Columns 5 and 6 are the same
Can you please help me?
Thank you very much
Raf
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