One way to do this is to use -cifti-separate on a small 91k grayordinates cifti with "-volume HIPPOCAMPUS_LEFT <data-dont-care> -roi <roi-output>" and similar for right hippocampus, then combine the left and right ROIs with -volume-math. You could also extract the labels from the Pipelines/global/templates/91282_Greyordinates/Atlas_ROIs.2.nii.gz file with -volume-label-to-roi.
Tim On Tue, Nov 1, 2016 at 4:49 PM, nailin yao <[email protected]> wrote: > Hi, > > I'm trying to do an overall correlation from hippocampus on cifti file ( > > rfMRI_REST1_LR_Atlas_hp2000_clean.dtseries.nii), and I run the command: > > > ./wb_command -cifti-correlation /Users/ny87/temp/S0009QPW/ > MNINonLinear/Results/rfMRI_REST1_LR/rfMRI_REST1_LR_Atlas_hp2000_clean.dtseries.nii > /Users/ny87/temp/S0009QPW/MNINonLinear/try_hipp_corr.dscalar.nii > -roi-override -vol-roi /Users/ny87/temp/S0009QPW/ > MNINonLinear/try_output_hipp.nii > > > which result is ERROR: roi volume space doesn't match cifti volume space. > > > May I know which atlas file is the right one to extract hippocampus ROI ? > > > Thank you very much! > > > Best, > > Nailin > > -- > Nailin Yao, PhD > > Postdoctoral Associate > Department of Psychiatry, Yale University > > _______________________________________________ > HCP-Users mailing list > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
