List of functional connectivity software
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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 |
|---|---|---|---|---|
| Brain Connectivity Toolbox | Graph-theoretical analyses of functional connectivity | Matlab | Department of Psychological and Brain Sciences, Indiana University | |
| Brain Modulyzer | Explore Hierarchical Processes of the functional brain networks | Python | U.S. Dept. of Energy, Lawrence Berkeley National Laboratory | |
| BrainNet viewer | Brain network visualization tool | Matlab | National Key Laboratory of Cognitive Neuroscience and Learning, Beijing Normal University | |
| Brainwaver | Brain connectivity extraction and analysis | R | waveslim | Centre National de la Recherche Scientifique, GIPSA-lab, University of Cambridge |
| BRAPH | BRAPH: BRain Analysis using graPH theory | Matlab | Soft Matter Lab, University of Gothenburg; Department of Neurobiology, Care Sciences and Society (NVS), Karolinska Institute | |
| C-PAC | Functional connectivity analysis pipeline | Python | Child Mind Institute; Nathan Kline Institute; NYU Langone Medical Center | |
| CONN | Functional connectivity analysis and display tool | Matlab | SPM | McGovern Institute for Brain Research, Massachusetts Institute of Technology: MIT |
| Connectome workbench | Visualization and discovery tool | Python | Child Mind Institute, Nathan Kline Institute, NYU Langone Medical Center | |
| cPPI | Task-related functional connectivity analysis | Matlab | SPM | Monash Clinical and Imaging Neuroscience |
| DCM | Dynamic Causal Modelling analysis | Matlab | SPM | Wellcome Trust Centre for Neuroimaging, University College London |
| FATCAT | Functional and tractographic connectivity analysis | C | AFNI | Scientific and Statistical Computing Core, National Institute of Mental Health: NIMH |
| FSFC | Seed-based functional connectivity analysis | Shell | FreeSurfer | Martinos Center for Biomedical Imaging |
| Fubraconnex | Tool for visual analysis of functional connectivity | C | Delft University of Technology | |
| GIFT | Independent component analysis | Matlab | Medical Image Analysis Lab, The Mind Research Network | |
| gPPI | Task-related functional connectivity analysis | Matlab | SPM | University of Wisconsin Madison |
| Graph Theoretic GLM Toolbox | Graph theory analysis and fMRI preprocessing pipeline | Matlab | Boston University School of Medicine, VA Boston Healthcare System | |
| Graphvar | Graph-theoretical analysis tool | Matlab | Division of Mind and Brain Research, Charité Universitätsmedizin | |
| MELODIC | Independent component analysis | C | FSL | Functional Magnetic Resonance Imaging of the Brain Analysis Group, Oxford University |
| NIAK | Neuroimaging analysis library | Matlab, Octave | Research Centre of the Montreal Geriatric Institute, University of Montreal | |
| nilearn | Machine learning for Neuro-Imaging in Python | Python | INRIA Parietal Project Team, Neurospin, CEA Institute | |
| PyNets | Workflow for structural and functional connectome ensemble learning | Python | Privately Operated | |
| REST | Resting-state functional connectivity analysis tool | Matlab | State Key Laboratory of Cognitive Neuroscience and Learning, Beijing Normal University | |
| Infinitome | Parcellation-based functional connectivity and display tool | Python | Omniscient Neurotechnology, Sydney, Australia |