On 03/28/2014 08:51 AM, Emily Boeke wrote: > Hi Freesurfers, > > I have some questions about ROI analyses. > > 1. I use the mni305 and fsaverage flags during preprocessing. Does this mean > that when I run funcroi-config, funcroi-sess, etc, the analysis is being > done for each subject in mni305 space, as opposed to native space? Meaning, > If I specify -seg aseg.mgz 18 in funcroi-config, the analysis will not be > done using the left amygdala from that individual's aseg, but instead will be > done in mni305 space with the fsaverage left amygdala ROI? No, it is done in native space. The voxelwise analysis is done in fsaverage/mni305 space, but the ROI boundaries used to compute the ROI averages are computed in native space and mapped to fsaverage/mni305 space. > > 2. I sometimes want to use labels I've created on fsaverage from averaged > group activation to do ROI analyses. If the ROI is in the volume, I convert > the label to a mask and run: > > mri_segstats --i cespct.nii.gz --seg mymask.mgz --id 1 --avgwf ces.mymask.dat > > In the appropriate contrast folder. What should I do if I want to do the same > thing, but with a surface label (in a lh or rh surface analysis, not an > mni305 analysis)? You can still use mri_segstats, just spec --slabel instead of seg doug > > > Thanks! > > Emily > >
-- 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: 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 [email protected] 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.
