Are you following these steps?
http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastFunctionalConnectivityWalkthrough
When you make your analysis, you need to include something like
-taskreg L_Posteriorcingulate.dat
Then when you run isxconcat-sess, you include this as the contrast. See
the wiki for more details
On 8/2/17 12:34 PM, John Anderson wrote:
Dear Dr Greve,
I am new to FSFAST so I highly appreciate your response.
I have resting state fMRI data and I am following the steps as
reported in wiki. I want to study the difference in functional
connectivity between two groups
My questions are regarding motion evaluation and the contrasts.
1. The attached figure is an output of "plot-twf-sess".Given the
plotted data can we say that including run 003 is more reliable that
all the other runs?
2. In the attached figure the command "plot-twf-sess" provides the
maximum and minimum motion for every run on Y axes. I am wondering if
there is any way to create a cutoff value of motion parameters for all
the runs in the study were data can be included/excluded depending on
lower/upper than this cutoff?
3. I used the following commands to study the differnc ein functional
connectivity between two groups (each group has one run):
## preprocessing
preproc-sess -s $subj -stc up -fwhm 5 -surface fsaverage lh rh
-mni305-2mm -fsd bold -per-run -init-spm
###**First-Level (Group) Analysis
mkanalysis-sess -analysis groupdiff-lh -surface fsaverage lh -fwhm 5
-notsk -mcextreg -polyfit 5 -nskip 4 -fsd bold -TR 2 -per-run
mkanalysis-sess -analysis groupdiff-rh -surface fsaverage rh -fwhm 5
-notsk -mcextreg -polyfit 5 -nskip 4 -fsd bold -TR 2 -per-run
mkanalysis-sess -analysis groupdiff-mni -mni305 2 -fwhm 5 -notsk
-mcextreg -polyfit 5 -nskip 4 -fsd bold -TR 2 -per-run
#####Analyze First Level
selxavg3-sess -s $subj -a groupdiff-lh -no-con-ok
selxavg3-sess -s $subj -a groupdiff-rh -no-con-ok
selxavg3-sess -s $subj -a groupdiff-mni -no-con-ok
Now for the next step I need to concatenate the sessions using
isxconcat but this command needs a contrast which I didn't create it
in the previous step. Given that I am looking for a differnce in the
functional connectivity between two groups how can I create the
contrast for this anlaysis.
Thank you for any help and feedback!!
John
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