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Dear Mr. Greve
Thanks for your suggestions.
However I'm still a bit puzzled about how to contrast two runs corresponding to
different stimulations (StimA: runA and StimB:runB) from one subject.
I have two runs each containing a paradigm file corresponding to one of the two
stimulations.
How is it possible to contrast those two stimulation conditions acquired in two
different runs since one run and thus also the paradigm file does not contain
both stimulation conditions?
Seemingly both stimulation conditions must be in one paradigm file set to
different onset timings to perform mkcontrast-sess
My folder Structure is as follows
Project Name
Session = Subject
Runs (001, 002) = Stimulation A and Stimulation B, each with a separate
paradigm file
I know that I do not have to model the no-stimulation periods explicitely
Best wishes
Chris
________________________________
Von: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> im Auftrag von Douglas N. Greve
<dgr...@mgh.harvard.edu>
Gesendet: Freitag, 6. März 2020 17:54:16
An: freesurfer@nmr.mgh.harvard.edu
Betreff: Re: [Freesurfer] within-subject contrast between runs
On 3/6/2020 11:15 AM, Milde, Christopher wrote:
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Dear Freesurfer Experts,
I have a very basic questions about creating subject-wise contrasts between runs
Background
Study with two runs per subject where each run corresponds two a different
condition (i.e. Stimulation A (on - off) and Stimulation B (on - off).
I performed the preprocessing and 1st levels stats in the native subjects space
Questions
* How can I obtain a within-subjects contrast between two runs (the
Stimulation A vs. Stimulation B ) obtained in two runs within one session?
The easiest way is to code the conditions differently in the paradigm file (eg,
instead of two conditions, you'd have 4, ARun1, BRun1, ARun2, BRun2), then just
create contrasts as normal
* Can I obtain this within-subject contrast by staying in the native
subject space?
It can be done in fsaverage or the native subject surface space, it is not
related.
* Do I have to concatenate both runs and create a new parradigm file?
No, see above
Thanks for your support
Sincerely
Chris
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