List of functional connectivity software

Functional connectivity software is used to study functional properties of the connectome using functional Magnetic Resonance Imaging (fMRI) data in the resting state and during tasks. To access many of these software applications visit the NIH funded Neuroimaging Informatics Tools and Resources Clearinghouse (NITRC) site.

Name	Description	Programming language	Is part of / requires	Developer/Organization
CONN^[1]	Functional connectivity analysis and display tool	Matlab	SPM	McGovern Institute for Brain Research, Massachusetts Institute of Technology: MIT
DCM^[2]	Dynamic Causal Modelling analysis	Matlab	SPM	Wellcome Trust Centre for Neuroimaging, University College London
FATCAT^[3]	Functional and tractographic connectivity analysis	C	AFNI	Scientific and Statistical Computing Core, National Institute of Mental Health: NIMH
FSFC^[4]	Seed-based functional connectivity analysis	Shell	FreeSurfer	Martinos Center for Biomedical Imaging
MELODIC^[5]	Independent component analysis	C	FSL	Functional Magnetic Resonance Imaging of the Brain Analysis Group, Oxford University

References

^ Whitfield-Gabrieli, S.; Nieto-Castanon, A. (2012). "Conn: a functional connectivity toolbox for correlated and anticorrelated brainnetworks". Brain Connect. 2 (3): 125–141. doi:10.1089/brain.2012.0073. PMID 22642651.
^ Friston, K. J.; Kahan, J.; Biswal, B.; Razi, A. (2014). "A DCM for resting state fMRI". NeuroImage. 94 (100): 396–407. doi:10.1016/j.neuroimage.2013.12.009. PMC 4073651. PMID 24345387.
^ Taylor, P. A.; Saad, Z. S. (2013). "FATCAT: (an efficient) Functional and Tractographic Connectivity Analysis Toolbox". Brain Connect. 3 (5): 523–535. doi:10.1089/brain.2013.0154. PMC 3796333. PMID 23980912.
^ Fischl, B. FreeSurfer (2012). "FreeSurfer". NeuroImage. 62 (2): 774–781. doi:10.1016/j.neuroimage.2012.01.021. PMC 3685476. PMID 22248573.
^ Beckmann, C. F.; DeLuca, M.; Devlin, J. T.; Smith, S. M. (2005). "Investigations into resting-state connectivity using independentcomponent analysis". Philos. Trans. R. Soc. Lond. B Biol. Sci. 360 (1457): 1001–1013. doi:10.1098/rstb.2005.1634. PMC 1854918. PMID 16087444.