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Dear Freesurfer developpers,
I posted a while back asking how to control for scanner site in a
multi-centre study. I think I now understand the formatting to do so for
a DOSS model, but was wondering how this would look for a DODS model.
There are 6 scanner sites and I also want to control for age and sex.
However, there are no females in 3 of the sites. I tried to create the
contrast for this but got the following error:
ERROR: 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.5.lgi.centre.mgh --fsgd FSGD_centre.txt dods
--glmdir rh.5.lgi.centre.glmdir --surf fsaverage rh --C
H-NH_centre.dods.txt
2. The FSGD file (if using one)
3. And the design matrix above
Attempting to diagnose further
SumSq: Min=1.000000 (col 4), Max=183.117447 (col 31)
The scale is much different between columns 4 and 31, you may want to
normalize by subtracting the mean and dividing by the standard
deviation.
My contrast was 1 -1 -1 -1 -1 -1 -1 -1 -1 0.75 0.75 0.75 0.75 0.75 0.75
0.75 0.75 0.75 0.75 0.75 0.75 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
and FSGD attached (does not include full list of subjects).
Thanks very much,
Colleen
GroupDescriptorFile 1
Class NH_Male_MAN
Class NH_Female_MAN
Class NH_Male_EDB
Class NH_Male_CAM
Class NH_Female_CAM
Class NH_Male_UCL
Class NH_Male_KCL
Class NH_Female_KCL
Class NH_Male_BIR
Class H_Male_MAN
Class H_Female_MAN
Class H_Male_EDB
Class H_Female_EDB
Class H_Male_CAM
Class H_Female_CAM
Class H_Male_UCL
Class H_Female_UCL
Class H_Male_KCL
Class H_Female_KCL
Class H_Male_BIR
Class H_Female_BIR
Variables Age
Input H_BMN001-002 H_Male_MAN 32
Input H_BMN001-003 H_Male_MAN 19
Input H_BMN001-006 H_Male_MAN 26
Input H_BMN001-015 H_Male_MAN 30
Input H_BMN001-040 H_Female_MAN 28
Input H_BMN001-041 H_Female_MAN 20
Input H_BMN001-042 H_Male_MAN 25
Input H_BMN001-043 H_Male_MAN 20
Input H_BMN001-044 H_Male_MAN 25
Input H_BMN001-046 H_Male_MAN 21
Input H_BMN001-055 H_Male_MAN 26
Input H_BMN001-056 H_Male_MAN 22
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