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Xiqian > I met some problems in 1st level analysis. In my fMRI study, each > subjects participated in four runs, which consisted of two > conditions(condition A and condition B). Half of the four runs for > condition A and the other two runs for condition B. Different > condition did not exist in the same run. I want to model the single > subject's data separately with 1st level analysis of SPM. > > My question is: Should I use two GLM for different conditions > separately(because they were in different runs)? Or should I set up a > single GLM contains every conditions? > Just run 1 GLM since this is the same experiment - in the 1st level analysis under session, simply create two sessions (ie run) and for each session enter your condition (A or B) ; best not to model your baseline see http://journal.frontiersin.org/Journal/10.3389/fnins.2014.00001/full you can then create a contrast A vs B - hopefully your experiment is counterbalanced across subjects (half subjects started by A the other half by B) as the difference A by B can be confounded by both subject experimental order / habituation and by scanner session difference best Cyril