Hi Doug,
Many thanks for the valuable answer and help.
I would appreciate a lot if you can advise me how I can get in a table from
QDEC the clusters after I find the clusters and also the mean value for the
cortical thickness within this clusters. I know in GLM the files are coming as
an output but I cannot see in QDEC this files. The same question for the values
after running FDR in QDEC.
My last question is what should I do if for one case I get error when I do FDR
and thresh is becoming 3.18 (instead of 2) and QDEC cannot run the statistics
for the clusters. Also it is possible to get more clusters after running FDR in
comparison with the no. of clusters when I set up the thresh 2?
Thank you very much and have a great weekend!
Antonella
________________________________
From: Douglas N Greve <gr...@nmr.mgh.harvard.edu>
To: Antonella Kis <ator...@yahoo.com>; freesurfer
<freesurfer@nmr.mgh.harvard.edu>
Sent: Thursday, September 22, 2011 3:53 PM
Subject: Re: [Freesurfer] Contrast Vector while eliminating age and gender
If you want to "eliminate" age and gender, you have to include them in
the model. In this case, they are called "nuisance" regressors. But this
is just an arbitrary name. The model is constructed of regressors, some
of which you care about and some you don't, but the GLM is run in the
same way regardless. Where the difference comes is when you go to
construct contrast vectors. If you
want to treat some regressors as
nuisance, then put a 0 in their column in the contrast vector.
doug
Antonella Kis wrote:
> Hi Doug,
>
> Yes, I looked online but in all the examples I found age was included
> in the study. The same thing for qdec all the examples I saw online
> are related to a study (a comparison between two groups) but
> considering age.
>
> I couldn't find any documentation for a study between two groups while
> eliminating age and gender.
>
> Please advise and sorry for all this questions.
> Regards,
> Antonella
> ------------------------------------------------------------------------
> *From:* Douglas N Greve <gr...@nmr.mgh.harvard.edu>
> *To:* Antonella Kis <ator...@yahoo.com>
> *Cc:* "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
> *Sent:* Thursday, September 22, 2011 12:03 PM
> *Subject:* Re: [Freesurfer] Contrast Vector while eliminating age and
> gender
>
> Have you looked at the FSGD examples on the wiki? Do a search for FSGD.
> doug
>
> Antonella Kis wrote:
> >
> >
> >
> > Dear All,
> >
> > What should be my contrast vector if I want to do a direct comparison
> > between groups (patients vs. controls) after eliminating gender and
> > age? Should this be [1 -1]?
> >
> > Should I change my FSGD in
order to be able to compare between
> > patients and controls accounting for age (I want to make sure that the
> > age does not confound my results). Please see attached my FSGD file.
> >
> > Also, my question is how the clusters are created: the clusters
> > formation is due to a similar value within cortical
> > thickness(cortical thickness with similar values from patients and
> > controls are grouped together in a cluster (e.g. cluster no.1) while
> > other cortical thickness values are forming different clusters) or the
> > clusters are formed based on age -age grouping (each subject belong to
> > an age cluster)?
> >
> > Thank you,
> > AK
> >
> >
> >
> >
> >
> >
>
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
>
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>
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>
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
Bugs:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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The information in this e-mail is intended only for the person to whom it is
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contains patient information, please contact the Partners Compliance HelpLine at
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