We are attempting to load subject specific ROIs (from Freesurfer), in the subject's native t1 space via the batch interface (this is from 2 subjects, more will be added).


batch.Setup.rois.names={'L_Amygdala', 'R_Amygdala'}; % put ROI names here
batch.Setup.rois.files{1}{1}=fullfile('/lfs/scratch/rlts/cam/working/cam_scratch/ot_rsbold_batch_test/11001/','11001_l_amygdala.nii');
batch.Setup.rois.files{1}{2}=fullfile('/lfs/scratch/rlts/cam/working/cam_scratch/ot_rsbold_batch_test/11001/','11001_r_amygdala.nii');
batch.Setup.rois.files{2}{1}=fullfile('/lfs/scratch/rlts/cam/working/cam_scratch/ot_rsbold_batch_test/11002/','11002_l_amygdala.nii');
batch.Setup.rois.files{2}{2}=fullfile('/lfs/scratch/rlts/cam/working/cam_scratch/ot_rsbold_batch_test/11002/','11002_r_amygdala.nii');

We intend to use this for group, seed to seed & seed to voxel analysis.  Should this work?
Is there a way to add these and keep the defualt rsREL, LLP, MPFC. PCC, etc seeds?  As we have currently implemented it, we get these ROIs but no longer have the default one.

Thanks!