mri_glmfit does not do it. Run mris_preproc. See the tutorial doug
On 05/31/2013 01:13 PM, Fotiadis, Panagiotis wrote: > Hey Doug, > > Is there any need to co-register the subjects (of the two cohorts) destined > for group analysis to the fsaverage space first in order to be able to > compare their cortical thickness on the same space, or does mri_glmfit do > that? > > Thanks again, > Panos > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Fotiadis, Panagiotis > Sent: Friday, May 31, 2013 12:28 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] Group Analysis > > Thanks! > Panos > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: Friday, May 31, 2013 12:22 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] Group Analysis > > yes > doug > On 05/31/2013 12:16 PM, Fotiadis, Panagiotis wrote: >> Hey Doug, >> >> Great, but besides the unbalanced numbers in each cohort, the fact that we >> have a cross sectional analysis instead of a longitudinal one doesn't matter >> right? Would it be correct to say that we still apply the same group >> analysis described in the wiki? >> >> Thanks, >> Panos >> ________________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve >> [gr...@nmr.mgh.harvard.edu] >> Sent: Friday, May 31, 2013 11:59 AM >> To: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] Group Analysis >> >> Hi Panos, are you asking whether theunbalanced design will leadto one >> slope being different than another just because the numbers are >> different? That is not a problem. You can simply follow the instructions >> on the wiki. >> doug >> >> >> >> On 05/31/2013 11:26 AM, Fotiadis, Panagiotis wrote: >>> Hey Doug, >>> >>> Sorry for the overwhelming amount of questions. I wanted to confirm >>> something. Suppose you want to do group analysis between two groups say a >>> healthy cohort vs a diseased cohort. Each cohort has ~40 and ~30 subjects >>> each (different people), and you want to compare how for instance the >>> cortical thickness decreases over age in the one group versus the other. Do >>> you still set the contrast vector as [0 0 1 -1] ([intercept 1 intercept 2 >>> slope 1 slope 2]) and follow the analysis described in >>> https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis or do >>> you go on a different way since there are different subjects instead of one >>> with 40 (or 30) different longitudinal data for each cohort? Don't we need >>> to correct the age slopes for the fact that we have 40 (and 30) different >>> subjects in each cohort? >>> >>> Thanks, >>> Panos >>> _______________________________________________ >>> 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: https://gate.nmr.mgh.harvard.edu/filedrop2 >> 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 >> 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 >> >> > -- > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 > 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 > 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 > > _______________________________________________ > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 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 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.
