On a similar note, I also want to find the group average of a particular task fMRI such as the emotion task fMRI. I found a .dscalar.nii CIFTI file for each task for each subject.
Can I average the .dscalar.nii files together across subjects with cifti-average since these are just CIFTI scalars files with a z-statistic column? -Ausaf On Mon, May 19, 2014 at 10:04 PM, Glasser, Matthew <glass...@wusm.wustl.edu>wrote: > The simplest way is to concatenate the timeseries with wb_command > -cifti-merge. You could do this for all runs of all subjects, or all runs > for each subject (and then z-transform and average the connectomes across > subjects). There will be a better way in the future. > > Peace, > > Matt. > > From: Timothy Coalson <tsc...@mst.edu> > Date: Monday, May 19, 2014 at 10:48 PM > To: Ausaf Bari <aus...@gmail.com> > Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> > Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI > > 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 > > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
