ah, the line should read "Variables" not "Variable"
doug
Vina Goghari wrote:
Yes. Attached. Thanks!
Douglas N Greve wrote:
can you send the fsgd file?
Vina Goghari wrote:
Yes I have a Variable line: "Variable Age Sex Scanner," before I
list all the Inputs.
Douglas N Greve wrote:
did you declare the variables in the fsgd file? See the examples in
the link below.
doug
Vina Goghari wrote:
Hello,
I have been trying to follow FreeSurfer guidelines to set up the
analysis. I keep getting an error that I'm not sure what I did
wrong. If you could take a quick look that would be great! I have
qcached the data and run mri-preproc.
mri_glmfit \
--y lh.MERIT_sMRI.thickness.10.mgh \
--fsgd MERIT_sMRI.fsgd dods\
--C lh-con-rel.mtx \
--surf fsaverage lh \
--cortex \
--glmdir MERIT_sMRI.glmdir
This is my error:
shell loop% --y lh.MERIT_sMRI.thickness.10.mgh \
shell loop% --fsgd MERIT_sMRI.fsgd dods\
shell loop% --C lh-con-rel.mtx \
shell loop% --surf fsaverage lh \
shell loop% --cortex \
shell loop% --glmdir MERIT-sMRI.glmdir
gdfReadHeader: reading MERIT_sMRI.fsgd
INFO: ignoring tag Variable
ERROR: gdfReadV1: Input line 1, subjid = MERIT_001
Found 3 variables, expected. 0
FSGDF Format Error: file = MERIT_sMRI.fsgd, tag=Input
Thanks so much!
Douglas N Greve wrote:
Vina, there's an example here which is pretty close to what you
are asking
https://surfer.nmr.mgh.harvard.edu/fswiki/FsgdExamples
Vina Goghari wrote:
Thanks Nick. Would coding the data by elements/label
GroupGenderHandedness be equivalent to looking at group effect
and then covarying for gender and handedness?
Thanks!
Nick Schmansky wrote:
Vina,
Qdec still doesnt support more than four variables, but you can
still do
the analysis by manually creating the input files to mri_glmfit by
following this tutorial:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis
Nick
On Sun, 2009-02-01 at 20:00 -0600, Vina Goghari wrote:
Hello Freesurfer group,
I have a couple of questions - I'm using FreeSurfer 4.0.3 to
recon-all my data. I've started using Qdec and I realized that
it won't accept more that 4 variables to be selected. I would
like diagnosis to be my main variable and then age, gender,
and scanner version as covariates.
Do you know if there is a different version of Qdec that would
allow me to do that analysis and if it is a problem to use
data processed with a different prior version with it?
Thanks,
Vina
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