what was your mkanalysis-sess command? On 06/08/2016 02:10 PM, Martin Juneja wrote: > Dear FreeSurfer and SPM experts, > > I am trying to calculate functional connectivity maps using FreeSurfer > pipeline: > http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastFunctionalConnectivityWalkthrough. > > After defining a seed region on raw anatomical image, I co-registered > functional data with anatomical data (as reference) and made sure that > the seed is at correct place on both anatomical (top left in attached > image) and functional (top right) data. Using SPM, I confirmed > co-registration was fine. > > But after running all the steps of FC, looks like the FC maps are not > correct: sig.nii.gz at -fthresh 2 3 (shown at bottom left) because I > am not getting significant FC at seed location. Here, bottom right > shows the seed location on surface after I convert the seed to > fsaverage space (for visualization purpose). > > Any thoughts, ideas or tips on what went wrong here, would be really > appreciated. > > Thanks. > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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