Hi Rick,
I ran all these commands on one of my subject to see how it works (each of my subject has 50 slices)
(3dTnorm -prefix unit.data DATA+tlrc
3dmaskave -quiet -mask BRAIN_MASK+tlrc DATA+tlrc > brain.mean.1D
3dTcorr1D -prefix mean.brain.corr DATA+tlrc brain.mean.1D)
the result i get is 50 numbers for each subject, so it seems it calculate the global connectivity for each slice not voxel. We wanted to calculate the average correlation between each voxel and all other voxels in brain and at the end it returns an average correlation for each voxel. but the result i get from these command is 50 numbers for each subject. so am i doing dsomething wrong?
Thanks,
Aral