Dear all, I am combining 3 runs of a subject using fixed effects GLM and I wanted to make sure I am doing the right thing.
For each subject I use: mri_glmfit --y 3runs/lh.cope1.mgh --yffxvar 3runs/lh.varcope1.mgh --ffxdof 126 --osgm --glmdir 3runs/lh.osgm.ffx --surf fsaverage lh --label $SUBJECTS_DIR/fsaverage/label/lh.cortex.label --fwhm 5
, while lh.cope1.mgh contains the concatenated cope1 images of the same subject in fsaverage space (the same for varcope1).
1) Is it the right way? 2) I took DOF from subjectX.feat/stats/dof of one of the runs. Is it correct? 3) The functional data has not been smoothed in the 1st level analysis in FSL (as recommended), and also not smoothed during sampling the copes to a common space. Therefore I want to smooth it here for the first time, but only with 5mm. Does it sound right?
Cheers, Aga