Re: [Freesurfer] Running a contrast on multiple taskregs in FSFAST

Actually, you can still do each contrast individually. Each will produce ces and cesvar files. Take the difference between the ces files and the average of the cesvar files, then feed the result into mri_glmfit FFX

doug

On 11/11/2014 11:56 AM, Caspar M. Schwiedrzik wrote:

Hi Doug, I wanted to follow up on this. Would you be able to provide a workaround for contrasting multiple taskregs against each other? Is there something I can try in the meantime? Thanks, Caspar

2014-11-10 13:54 GMT-05:00 Caspar M. Schwiedrzik <cschwiedrz@rockefeller.edu mailto:cschwiedrz@rockefeller.edu>:

Hi Doug,
thanks for your reply. I would like to feed the differences into a
FFX group analysis, so I think I will need to resort to your
workaround. It would be great if you could provide that. Thanks!
Caspar

2014-11-10 13:45 GMT-05:00 Douglas N Greve
<greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>>:


    To get sig maps for  an individual, this is problematic but I
    could
    probably come up with a work-around. For a group analysis, you can
    simply compute each taskreg separately, then subtract the two
    prior to
    running mri_glmfit.
    doug

    On 11/10/2014 01:36 PM, Caspar M. Schwiedrzik wrote:
    > Hi!
    > A quick follow-up:
    > I have a taskreg file with 6 continuous predictors. I would
    like to
    > run specific contrasts, e.g., predictor 1 vs. mean(predictor
    2:6).
    > From what I gather, selxavg3-sess will run automatic
    contrasts on
    > taskregs, but the automatic contrasts are against baseline.
    This is
    > not what I need at this point.
    > mk-contrast-sess does not like what I am putting in because
    I do not
    > have a paradigm file in which condition numbers are specified.
    > Is there a way to compute specific contrasts between multiple
    > taskregs, and if not, is there a workaround?
    > Thank you very much, Caspar
    >
    >
    > 2014-11-06 15:23 GMT-05:00 Caspar M. Schwiedrzik
    > <cschwiedrz@rockefeller.edu
    <mailto:cschwiedrz@rockefeller.edu>
    <mailto:cschwiedrz@rockefeller.edu
    <mailto:cschwiedrz@rockefeller.edu>>>:
    >
    >     Hi!
    >     I have several external regressors in my analysis that I
    configure
    >     with -taskreg in mkanalysis-sess (something like -notask
    -taskreg
    >     nameoffile 6).
    >     I was wondering how to set up mkcontrast-sess to
    contrast these
    >     regerssors given that I do not have a paradigm file for
    them.
    >     Can I just do something like -a 1 -c 2 -c 3 -c 4 -c 5?
    >
    >     Thanks, Caspar
    >
    >
    >
    >
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    Douglas N. Greve, Ph.D.
    MGH-NMR Center
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