Dear Alfonso, dear developers of the conn toolbox,

I use conn to analyze the functional connectivity. I always use the default pipeline using direct segmentation and normalization.
In SPM12, I coregister structural T1-weighted image to mean functional image using 'coregister estimate', and normalize coregistered T1-wi image to obtain the deformation field. Then I normalize the functional image using the deformation field ( using "normalise write").
When I adapt the direct segmentation to functional and structural images, are the two processing pipelines（functional, and structural processing) interrelated each other? Or is there no interrelation between them?
I want to know the relation between the functional and structural preprocessing.

Thank you in advance!