Hi Alex, if you use "-m cespct" it will report the mean percent signal change within the ROI. Does this work? doug
On 10/31/2013 02:37 PM, Alexandra Tanner wrote: > Hi Doug and Freesurfers, > > I would like to calculate percent signal change within an anatomical ROI > for a group of subjects in Freesurfer 5.0. We are not functionally > constraining our ROI, however, we do want to calculate the percent signal > change across the entire region in each of our conditions (the contrasts > we are using are condition-vs-fixation). Below are examples of the > commands I've run for one of our conditions: > > funcroi-config -analysis SIRP_Stable5 -label lh.7Network_6.PFC.label -roi > /cluster/roffman/users/Stable5_PerRun/ROI_Analysis/FB12/Anatomical_roicfg_103113/SIRP_lh_7Networks_6_PFC.roicfg > > funcroi-sess -roi > /cluster/roffman/users/Stable5_PerRun/ROI_Analysis/FB12/Anatomical_roicfg_103113/SIRP_lh_7Networks_6_PFC.roicfg > -sf > /cluster/roffman/users/Stable5_PerRun/Subject_Files/30_ActiveFolateAndPlacebo_PostPrePAIRED > > funcroi-table-sess -roi > /cluster/roffman/users/Stable5_PerRun/ROI_Analysis/FB12/Anatomical_roicfg_103113/SIRP_lh_7Networks_6_PFC.roicfg > -sf > /cluster/roffman/users/Stable5_PerRun/Subject_Files/30_ActiveFolateAndPlacebo_PostPrePAIRED > -o > /cluster/roffman/users/Stable5_PerRun/ROI_Analysis/FB12/Anatomical_roicfg_103113/18ActiveFolate_12Placebo_PreAndPost_7Tpost/lh_7Networks_6_PFC_1vFix > -c Cond1vFix > > Is it necessary to now generate the mean functional baseline offset value > within the ROI in order to calculate percent signal change if our contrast > is comparing condition-vs-fixation? Any clarification on when the offset > value is needed 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: 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.
