I'll start the process thursday. On 11/11/2014 12:04 PM, Douglas N Greve wrote: > It will be the same as the DOF of the individual contrasts (don't sum them). > > On 11/11/2014 12:58 PM, Caspar M. Schwiedrzik wrote: >> ok, I will try that. How do I get the degrees of freedom? Thanks! Caspar >> >> 2014-11-11 12:04 GMT-05:00 Douglas N Greve <gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.edu>>: >> >> >> Actually, you can still do each contrast individually. Each will >> produce >> ces and cesvar files. Take the difference between the ces files >> and the >> average of the cesvar files, then feed the result into mri_glmfit FFX >> >> doug >> >> >> On 11/11/2014 11:56 AM, Caspar M. Schwiedrzik wrote: >> > Hi Doug, >> > I wanted to follow up on this. Would you be able to provide a >> > workaround for contrasting multiple taskregs against each other? Is >> > there something I can try in the meantime? Thanks, Caspar >> > >> > >> > 2014-11-10 13:54 GMT-05:00 Caspar M. Schwiedrzik >> > <cschwie...@rockefeller.edu <mailto:cschwie...@rockefeller.edu> >> <mailto:cschwie...@rockefeller.edu >> <mailto:cschwie...@rockefeller.edu>>>: >> > >> > Hi Doug, >> > thanks for your reply. I would like to feed the differences >> into a >> > FFX group analysis, so I think I will need to resort to your >> > workaround. It would be great if you could provide that. Thanks! >> > Caspar >> > >> > 2014-11-10 13:45 GMT-05:00 Douglas N Greve >> > <gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.edu> >> <mailto:gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.edu>>>: >> > >> > >> > To get sig maps for an individual, this is problematic >> but I >> > could >> > probably come up with a work-around. For a group >> analysis, you can >> > simply compute each taskreg separately, then subtract >> the two >> > prior to >> > running mri_glmfit. >> > doug >> > >> > On 11/10/2014 01:36 PM, Caspar M. Schwiedrzik wrote: >> > > Hi! >> > > A quick follow-up: >> > > I have a taskreg file with 6 continuous predictors. I >> would >> > like to >> > > run specific contrasts, e.g., predictor 1 vs. >> mean(predictor >> > 2:6). >> > > From what I gather, selxavg3-sess will run automatic >> > contrasts on >> > > taskregs, but the automatic contrasts are against >> baseline. >> > This is >> > > not what I need at this point. >> > > mk-contrast-sess does not like what I am putting in >> because >> > I do not >> > > have a paradigm file in which condition numbers are >> specified. >> > > Is there a way to compute specific contrasts between >> multiple >> > > taskregs, and if not, is there a workaround? >> > > Thank you very much, Caspar >> > > >> > > >> > > 2014-11-06 15:23 GMT-05:00 Caspar M. Schwiedrzik >> > > <cschwie...@rockefeller.edu >> <mailto:cschwie...@rockefeller.edu> >> > <mailto:cschwie...@rockefeller.edu >> <mailto:cschwie...@rockefeller.edu>> >> > <mailto:cschwie...@rockefeller.edu >> <mailto:cschwie...@rockefeller.edu> >> > <mailto:cschwie...@rockefeller.edu >> <mailto:cschwie...@rockefeller.edu>>>>: >> > > >> > > Hi! >> > > I have several external regressors in my analysis >> that I >> > configure >> > > with -taskreg in mkanalysis-sess (something like >> -notask >> > -taskreg >> > > nameoffile 6). >> > > I was wondering how to set up mkcontrast-sess to >> > contrast these >> > > regerssors given that I do not have a paradigm >> file for >> > them. >> > > Can I just do something like -a 1 -c 2 -c 3 -c 4 -c 5? >> > > >> > > Thanks, Caspar >> > > >> > > >> > > >> > > >> > > _______________________________________________ >> > > Freesurfer mailing list >> > > Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu> >> > <mailto:Freesurfer@nmr.mgh.harvard.edu >> <mailto: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 <mailto:gr...@nmr.mgh.harvard.edu> >> <mailto:gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> >> > Phone Number: 617-724-2358 <tel:617-724-2358> >> <tel:617-724-2358 <tel:617-724-2358>> >> > Fax: 617-726-7422 <tel:617-726-7422> <tel:617-726-7422 >> <tel:617-726-7422>> >> > >> > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >> > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >> > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> > www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >> > >> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >> > Outgoing: >> > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> > >> > _______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu> >> > <mailto:Freesurfer@nmr.mgh.harvard.edu >> <mailto: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. >> > >> > >> > >> > >> > >> > _______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu >> <mailto: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 <mailto:gr...@nmr.mgh.harvard.edu> >> Phone Number: 617-724-2358 <tel:617-724-2358> >> Fax: 617-726-7422 <tel:617-726-7422> >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >> Outgoing: >> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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