This is a design problem that will not be solved by simply forcing
glmfit to run. I would remove that class and those subjectgs
On 5/13/2020 2:33 PM, Marina Fernández wrote:
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Thank you, Doug.
That makes sense.
Do you think in this case it is a good option
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Thank you, Doug.
That makes sense.
Do you think in this case it is a good option to add the flag --illcond to
run this analysis without getting an error? or is it better not to use the
variable apoe in these statistical analyzes?
What do you
The problem is that class 3 (smaleapoe) only has two members but you
have four covariates. When you use DODS, each class gets its own fit to
the data. In this case, class 3 is trying to solve for 5 unkowns (offset
+ 4 slopes) with only two data points.
On 5/13/2020 10:18 AM, Marina Fernández
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Hi Douglas,
I email you the fsgd file and I have also sent it through FTP.
Thank you for your attention.
Best regards,
Marina.
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Can you email the fsgd file?
On 5/12/2020 1:35 PM, Marina Fernández wrote:
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Dear Freesurfer experts,
I get the error that you can find at the end of this message when I am
running mri_glmfit.
Whenever I run an analysis in which the experimental design
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Dear Freesurfer experts,
I get the error that you can find at the end of this message when I am
running mri_glmfit.
Whenever I run an analysis in which the experimental design has more than
12 columns, I get the same error, whereas if the
It does not look like the variables are demeaned (your FSGD file below)
Variables Age eTIV EnglishParityRT
Input Math_5001m Monolingual_male 18 1865790.30866 -8952.208
Input Math_5002m Monolingual_female 19 1520429.68796 -4605.208
Input Math_5003m Monolingual_male 19 1749716.72939
Hi Doug,
Thank you for your response. The current fsgd file I sent you was with the
covariates demeaned x 100, as I saw you recommend that to someone else. We
previously tried doing just the demeaned values without multiplying by 100,
and that still had the badly scaled error. Do you think we
This is almost surely a problem with scaling as your covariates are
huge. Try subtracting the mean and dividing by the stddev before
entering into the FSGD file. Compute the means and stddevs across all
subjects.
doug
On 07/11/2016 03:20 PM, Jennifer Legault wrote:
> Hi Freesurfer Experts,
>
>
Hi Freesurfer Experts,
I am trying to run mri_glmfit and while 90% of my files work, some of them
display the error below. I have tried demeaning, and then tried
multiplying this value by 100, and I still get the same error. Any
feedback would be greatly appreciated.
mris_preproc done
Hi Doug!
Thank you very much for your reply. I made the fsgd file in a plain-text
file using the textedit program on a Mac and when that didn't work I tried
modifying in the terminal window using: nano -w g4v1.73.fsgd.
This also didn't solve the problem. I am not sure what to try next.
Lindsay
The file I looked at had a bunch of carriage returns (try looking at it
with more or less or cat). As long as those are in there, it will create
an error.
Try running this and using the new one
cat g4v1.73.fsgd | sed 's/\r/\n/g' new.g4v1.73.fsgd
On 12/12/2014 12:09 PM, lindsay hanford wrote:
Thank you Doug! I replaced all my spaces with new spaces and it worked!
Much appreciated!
Lindsay
On Fri, Dec 12, 2014 at 12:09 PM, lindsay hanford lindsay.hanf...@gmail.com
wrote:
Hi Doug!
Thank you very much for your reply. I made the fsgd file in a plain-text
file using the textedit
Hello,
Has anyone had a chance to look at this? I still haven't been able to solve
the problem.
Thanks!
Lindsay
On Mon, Dec 1, 2014 at 2:41 PM, lindsay hanford lindsay.hanf...@gmail.com
wrote:
Hello Freesurfer Experts!
I am encountering the dreaded mri_glmfit error: matrix is
Your FSGD file appears to have been made under windows or using an
editor that is not simple text. The contrast matrix looks ok.
doug
On 12/01/2014 02:41 PM, lindsay hanford wrote:
Hello Freesurfer Experts!
I am encountering the dreaded mri_glmfit error: matrix is
ill-conditioned or
Hello Freesurfer Experts!
I am encountering the dreaded mri_glmfit error: matrix is ill-conditioned
or badly scaled, condno = 1e+08. I have tried to troubleshoot how to solve
this problem from other inquiries, however, I still have had no luck. I am
trying to run a 4 group 1 variable analysis:
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