Averaging together timepoints does not make sense for resting state data, it does not use stimuli, so there is no temporal correspondence between runs or across subjects. You should do the correlation before any averaging.
I'm not sure what method our pipelines use, so I'll let someone else respond as to what the recommended method is (you probably don't need to correlate each file by itself, which would use up lots of disk space). Tim On Mon, May 19, 2014 at 8:22 PM, Ausaf Bari <aus...@gmail.com> wrote: > I am trying to create a resting state fMRI average over 10 subjects to > view in connectome workbench. For each HCP subject, I found the following 4 > files: > > rfMRI_REST1_RL_Atlas_hp2000_clean.dtseries.nii > rfMRI_REST1_LR_Atlas_hp2000_clean.dtseries.nii > rfMRI_REST2_RL_Atlas_hp2000_clean.dtseries.nii > rfMRI_REST2_LR_Atlas_hp2000_clean.dtseries.nii > > So for 10 subjects, I will have 40 total files. Am I correct to assume > that I can use the command line tool "wb_command -cifti-average" to average > over all 40 files and then "wb_command -cifti-correlation" to create a > dense connectome? > > -Ausaf > > > -- > Ausaf A. Bari MD PhD > Resident Physician > UCLA Medical Center > Department of Neurosurgery > > Email: aus...@gmail.com > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
