Hi,
I have two basic
questions.
1- I am currently having
some AP fMRI runs and I have also acquired a single PA run
to be able to do distortion correction, my original plan was
to use FSL and apply topup to get the undistorted fMRI data.
How can I fit it within the preproc-sess command? ( I
suppose the motion correction and slice timing correction
should be done before topup), could you please suggest me
what is more appropriate to do?
2- In my study, for each subject I did 8
runs in a single data acquisition session. The runs that I
have are 2 different types; The first type of runs ( 4 runs)
have black background and the other 4 runs have the gray
background. My ultimate goal is to compare these 2 conditions
in a group and subject level. Do you suggest that in the
functional folder, I create two sessions per subject and put
the four runs with gray background in session 1 and the other
four runs with the black background in session 2?
Thank you so much for your time and
consideration.
Asa Farahani
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