Whitfield-Gabrieli, S., & Nieto-Castanon, A. (2012). Conn: A functional connectivity toolbox for correlated and anticorrelated brain networks. Brain connectivity, 2(3), 125-141

Nieto-Castanon, A. (2020). Handbook of functional connectivity Magnetic Resonance Imaging methods in CONN. Boston, MA: Hilbert Press

General software documentation: CONN toolbox manual

Documentation for creating scripts automating all input/processing/analysis steps of functional connectivity data: CONN batch commands

Documentation for creating scripts automating individual processing/analysis steps of arbitrary (non-connectivity) data: CONN modular commands

Documentation for using CONN in the context of High Performance Computing clusters or multi-processor environments: CONN grid