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 > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
