Thanks for the clarification! So I will rerun mergecontrasts-sess using the ces image on my subjects and then run mri_vol2surf and mri_concat to get the group map. Thanks for your help!
Best, Alex > Usually the contrast effects size (ces) (in SPM this is the CON image, > in FSL it is the COPE image). Univariate maps are usually passed up to > the group level (the conjunction done with mergecontrasts is > multivariate). > doug > > > On 11/29/2012 01:05 PM, Alexandra Tanner wrote: >> Hi Doug, >> >> Thanks for the response! Just out of curiosity, what map is typically >> used >> for group analyses? Should I have used a map other than sig on the >> individual subject level as well? >> >> Thanks! >> Alex >> >> >>> You'll have to run mri_vol2surf on each one separately to bring it into >>> the fsaverage space, then mri_concat to stack all of the maps into one >>> file. At that point you can compute a mean (also with mri_concat). >>> Generally, one does not do group analysis on sig maps though. >>> doug >>> >>> >>> On 11/27/2012 05:08 PM, Alexandra Tanner wrote: >>>> Hi Doug and Freesurfers, >>>> >>>> I recently used mergecontrasts-sess to merge two contrasts of an >>>> analysis >>>> in 50 different subjects. The command ran on each subject individually >>>> and >>>> created a sig.nii and sig.ovpl file within a merged contrast folder >>>> for >>>> each subject. I'd now like to look at an average map of the merged >>>> contrasts across all 50 subjects. >>>> Does anyone know how to go about getting this average map for my group >>>> of >>>> 50 subjects? >>>> >>>> Command I ran to get the sig.nii/sig.ovpl file for each subject: >>>> mergecontrasts-sess -mergedcontrast Merge_7vFix_1vFix -conjunction >>>> andor >>>> -analysis SIRP_Stable5 -contrast Cond7vFix 3 pos 0 -contrast Cond1vFix >>>> 3 >>>> pos 0 -map sig -sf >>>> /cluster/roffman/users/Stable5_PerRun/Subject_Files/50_MTH_Subjects >>>> -df >>>> /cluster/roffman/users/Stable5_PerRun >>>> >>>> Any help would be greatly appreciated! >>>> >>>> Thanks, >>>> Alex >>>> >>>> >>> -- >>> 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 >>> Outgoing: >>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>> >>> >>> >> > > -- > 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 > 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.
