Hi all, we're using 5.1 to analyze some single subject, event-related functional data, and are getting some strangely high values for % signal change when using func2roi-sess and roisummary-sess.
Here are the commands we're running:
func2roi-sess -s LMV2012_N01_heading -roidef rhmed_singlevsdouble_1 -analysis glheadgen_analysis -labelfile /home/vmrao17/freesurfer/subjects/LMV2012_N01/label/rhmed_singlevsdouble_1.label -maskcontrast allvsoff -maskthresh 1.50 -masktail pos -maskmap sig
roisummary-sess -sumfile /home/vmrao17/tmp/summary.txt -roidef rhmed_singlevsdouble_1 -analysis glheadgen_analysis -s LMV2012_N01_heading
And this is the output of summary.txt:
LMV2012_N01_heading 51 12 123.737160 1.535988 1572.000000 0.050000 -0.000000 21 1 0.734151 3.595402 4.435675 5.482294 0.544176 -0.166144 2.951724 2.114511 3.178010 2.814232 0.944738 0.466052 8.508595 7.646451 6.767788 9.197896 8.802674 11.339759 7.822568 4.040024 8.018742
The problem is that the effect size values seem very high and/or the baseline seems very low (e.g., 100*11.33/123.7=9%!).
In 4.5 we were computing a scaling factor for these values, but my understanding was that in 5.1 that was no longer needed, correct? Is there anything else we should be doing differently when computing % signal change from this output now? The only other strange thing I notice is that the TER value is 0.05, but documentation describes TR/20 and our TR=2sec, which would seem to suggest it should be 0.1 instead of 0.05?
I'm attaching the full output log for the two commands above as well. Anything that we're obviously doing wrong? Thanks!