1) I would recommend starting with the MIGP dense PCASeries instead of the connectome (the .dtseries.nii file), as you can get the benefits of averaging the ³timeseries² within the ROI prior to computing the correlation. You can use this command for this purpose: wb_command -cifti-average-roi-correlation.
2) The dense connectome is in CIFTI grayordinates space. You can learn more about CIFTI and grayordinates from these references: http://www.nature.com/neuro/journal/v19/n9/abs/nn.4361.html http://www.sciencedirect.com/science/article/pii/S1053811913005053 The subcortical data are in MNI space, but the surface data are on a registered 32k mesh that has been aligned across subjects using areal features (such as myelin, and resting state connectivity) to give better cross-subject alignment than traditional volume-based alignment approaches to MNI space. Peace, Matt. On 11/18/16, 5:06 AM, "hcp-users-boun...@humanconnectome.org on behalf of Nicola Toschi" <hcp-users-boun...@humanconnectome.org on behalf of tos...@med.uniroma2.it> wrote: >Hi List, > >we are working with the R820 dense connectome (in connectome workbench) >and have a few (basic?) questions which we are struggling with: > >1) What is the recommended sequence of commands to extract a seed-based >connectome from the 33GB dense connectome file (e.g. all nodes which are >connected to a ROI in greyordinate space, say the right amygdala for >example), ad successively visualize it in the workbench? We tried to do >this with the matlab tools but without success. > >2) What exactly is the native coordinate space in which the dense >connectome 'lives' (the workbench visualizes coordinates in mm, but they >do not look like MNI coordinates)? > >Thank you very much in advance! > >Nicola >_______________________________________________ >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
