You do not need to re-run the fit. Just run selxavg3-sess with the -contrasts-only option. The new selxavg automatically performs temporal whitening which can make your first-level sig maps appear to be "worse". You can try turning off the whitening with -no-whiten.
doug Sebastian Moeller wrote: > Hi List, hi Doug, > > I just started to use freesurfer 4.5.0 for functional data (before I only > used 3.0.5). Now I see that the whole analysis workflow has changed from > mkanalysis-sess.new -> selxavg-sess -> mkcontrast-sess -> stxgrinder-sess to > mkanalyss-sess -> mkcontrast-sess -> selxavg3-sess, now what happens when I > want to add/change contrasts after running selxavg3-sess? Do I still run > stxgrinder-sess or rerun selxavg3-sess (can I avoid recalculating the full > GLM)? > And more interesting, I seem to use mkanalysis-sess.new incorrectly as > I get much worse results from the selxavh3 analysis than from the old one. Is > there anything special to take into consideration of non human primate > analysis (I already fix up the gamma function and autocorrelation timewindows > to reflect the use of mion in monkeys). If anyone has a good idea what to try > I am all ears... > > best > Sebastian > _______________________________________________ > Freesurfer mailing list > [email protected] > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > -- Douglas N. Greve, Ph.D. MGH-NMR Center [email protected] 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 [email protected] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
