HI, AFNI experts,

I am thinking to use 3dNetCorr to do the whole brain network analysis (something like graph theoretical analysis) - is this possible? I do not understand the example of this command very well.

@ROI_Corr_Mat -ts s620_rest_r1+orig \
-roi SUMA/aparc.a2005s+aseg.nii \
-prefix s620_matrix_all_ROIs
[afni.nimh.nih.gov]

My understanding is that this function can be used for either rest stated based data or task based data. For the <-ts>, the input is the EPI data, while for the input for <-roi>, I am not clear whether we can and must provide multiple ROIs. If it is only with one ROI, it does not make sense to see the ROIs correlation. If we can do with multiple ROIs, then it is equal to say that we can do the functional connectivity with multiple ROIs, using this method. Am I correct? Any good pointers for me?

My further question is whether we can use this command to extract the BOLD signal for each ROI? Perhaps we have to go back to use 3dROIstates to get it.

Thank you very much,
J