Cole Neurocognition Laboratory

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20 repositories

MultipleComparisonsPermutationTesting
Public
Code to perform FWE-correction for multiple comparisons using permutation testing (see Nichols & Holmes, 2001)
MATLAB
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GNU General Public License v3.0
•3•7•1•0•Updated Dec 2, 2024Dec 2, 2024
CPRO2_learning_release
Public
C
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GNU General Public License v3.0
•0•0•0•0•Updated Jun 29, 2024Jun 29, 2024
ActflowToolbox
Public
The Brain Activity Flow ("Actflow") Toolbox. Tools to quantify the relationship between connectivity and task activity through network simulations and machine learning prediction. Helps determine how connections contribute to specific brain functions.
machine-learning neural-networks neuroimaging fmri brain-connectivity brainweb simulations activity-flow
Python
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MIT License
•10•35•0•3•Updated Jun 27, 2024Jun 27, 2024
DirectedActflow_release
Public
Repository for Sanchez-Romero, R., Ito, T., Mill, R. D., Hanson, S. J., & Cole, M. W. (2023). "Causally informed activity flow models provide mechanistic insight into network-generated cognitive activations". NeuroImage, 120300. https://doi.org/10.1016/j.neuroimage.2023.120300
connectivity neuroimaging fmri cognition generative-modelling actflow causal-search directed-fc
Jupyter Notebook
•1•0•0•0•Updated Apr 24, 2024Apr 24, 2024
CombinedFC
Public
Repository for Sanchez-Romero, R., & Cole, M. W. (2021). "Combining multiple functional connectivity methods to improve causal inferences". Journal of cognitive neuroscience, 33(2), 180-194. https://doi.org/10.1162/jocn_a_01580
Jupyter Notebook
•6•21•0•0•Updated Aug 25, 2023Aug 25, 2023
TaskFCRemoveMeanActivity
Public
Code for running simulations and data analysis from: Cole MW, Ito T, Schultz D, Mill R, Chen R, Cocuzza C (2019). "Task activations produce spurious but systematic inflation of task functional connectivity estimates". NeuroImage. doi:10.1016/j.neuroimage.2018.12.054 https://authors.elsevier.com/a/1YNWs3lc~r3Jbx
Roff
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MIT License
•3•11•0•2•Updated Jul 6, 2023Jul 6, 2023
LatentFC_release
Public
Code release for McCormick et al. (2022): McCormick EM*, Arnemann KL*, Ito T, Hanson SJ, Cole MW (2022). "Latent functional connectivity underlying multiple brain states". Network Neuroscience; 6 (2): 570–590 doi:10.1162/netn_a_00234 [* = equal contribution]
Jupyter Notebook
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MIT License
•0•1•0•0•Updated Mar 24, 2023Mar 24, 2023
FlexHubMechanism
Public
Publicly available code for "A flexible hub connectivity mechanism for cognitive control". Manuscript in-preparation. Part of C. Cocuzza's dissertation (Aim 3).
computational-neuroscience fmri predictive-modeling brain-imaging brain-connectivity functional-connectivity cognitive-control network-neuroscience fmri-data-analysis brain-modeling
GNU General Public License v3.0
•0•0•0•0•Updated Sep 26, 2022Sep 26, 2022
ActFlowCategories
Public
Publicly available code for "Distributed network processes account for the majority of variance in localized visual category selectivity", Cocuzza et al., 2022.
predictive-modeling brain-imaging brain-connectivity functional-connectivity neuroscience-methods network-neuroscience brain-networks brain-modeling vision-neuroscience semantic-categories
Jupyter Notebook
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GNU General Public License v3.0
•0•0•0•0•Updated Mar 26, 2022Mar 26, 2022
controlCartography
Public
Code for: "Flexible coordinator and switcher hubs for adaptive task control". Cocuzza et al., 2020 (In Press). Journal of Neuroscience.
network-science computational-neuroscience neural-networks neuroimaging fmri brain-connectivity functional-connectivity cognitive-control network-dynamics network-metrics
Jupyter Notebook
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GNU General Public License v3.0
•2•3•0•0•Updated Dec 6, 2021Dec 6, 2021
ClinicalActFlow_release
Public
Jupyter Notebook
•1•3•1•0•Updated Apr 27, 2021Apr 27, 2021
TaskFCActflow_release
Public
Code release for Cole et al. (2021) "The functional relevance of task-state functional connectivity", Journal of Neuroscience
connectivity neuroimaging fmri
Jupyter Notebook
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MIT License
•2•1•0•0•Updated Feb 23, 2021Feb 23, 2021
ColeAnticevicNetPartition
Public
Public release of The Cole-Anticevic Brain-wide Network Partition (CAB-NP)
neuroscience connectivity neuroimaging network-partitions brain brain-imaging
C
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Other
•20•66•0•0•Updated Feb 8, 2021Feb 8, 2021
DynamicSensoryMotorEGI_release
Public
MATLAB
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GNU General Public License v3.0
•0•1•0•0•Updated Jan 15, 2021Jan 15, 2021
actflowmapping
Public
Data analysis code associated with Cole et al. (2016), Nature Neuroscience
MATLAB
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MIT License
•4•6•0•0•Updated Aug 11, 2020Aug 11, 2020
AgingActflow_release
Public
Public code release for Mill, Gordon, Balota & Cole (2020): "Predicting dysfunctional age-related task activations from resting-state network alterations"
MATLAB
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GNU General Public License v3.0
•0•1•0•0•Updated Jul 20, 2020Jul 20, 2020
hierarchy2020
Public
code base for Ito T, Hearne LJ, Cole MW (2020). "A cortical hierarchy of localized and distributed processes revealed via dissociation of task activations, connectivity changes, and intrinsic timescales"
Jupyter Notebook
•3•4•0•0•Updated Jul 13, 2020Jul 13, 2020
Motion_tACS_fMRI
Public
Kar, Ito, Cole, Krekelberg - Collaboration with Krekelberg lab
HTML
•0•0•0•0•Updated Oct 9, 2019Oct 9, 2019
informationtransfermapping
Public
Public code release for Ito, Kulkarni, Schultz, Mill, Chen, Solomyak, Cole (2017)
Jupyter Notebook
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GNU General Public License v3.0
•4•7•0•0•Updated Nov 30, 2018Nov 30, 2018
simplesims
Public
A simple simulation framework for testing brain functional connectivity methods
R
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MIT License
•1•3•0•0•Updated Dec 7, 2015Dec 7, 2015