It might be that the sequence was not so good. You might try setting the prestim to 0 (to match your optseq cmd line).
doug
Yuko Yotsumoto wrote:
Hi all,
(-------- freesurfer-Darwin-leopard-i686-stable-pub-v4.5.0 --------)
I created sequences for event-related design, using optseq2. optseq2 --ntp 150 --tr 2 --psdwin 0 20 1 --ev TG1 2 22 --ev IG1 2 22 --ev CNT 2 22 --ev TGIG 2 22 --ev TGCN 2 22 --nsearch 2000 --focb nCB10pt --nkeep 15 --o MO
Then, I did: preproc-sess -df sessdirfile -s MO01B -fwhm 5 -fsd bold mkanalysis-sess -analysis fmcsm5TER1 -TR 2 -paradigm para.para -designtype event-related -funcstem fmcsm5 -motioncor -runlistfile runfile6 -inorm -polyfit 2 -mcextreg -nconditions 5 -timewindow 20 -prestim 4 -TER 1 -autostimdur -force mkcontrast-sess -analysis fmcsm5TER1 -contrast AllNull -a 1 -a 2 -a 3 -a 4 -a 5 -c 0 selxavg3-sess -s MO01B -df sessdirfile -analysis fmcsm5TER1 -overwrite
-TER in mkanalysis-sess doesn't seem to be working correct (see the right picture in the link). when I set -TER for mkanalysis-sess to be 2, the plot looks fine (see the left picture in the link). http://www.nmr.mgh.harvard.edu/~yuko/images/HDR_TER2_TER1.jpg
Does this mean the sequence I used wasn't good for -TER=1? Or is there a way to make the plot right?
Yuko
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