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glhmm

hmm-mar

Toolbox for segmentation and characterisation of transient connectivity

hmm_explore

This repository contains the code used to analyze the HMM model, as described in the paper 'Dissecting unsupervised learning through hidden Markov modelling in electrophysiological data'

ignition

Matlab code to run the measures of brain dynamics as described in "Reduced spatiotemporal brain dynamics are associated with increased depressive symptoms after a relationship breakup" S Alonso Martinez, 2020, based on code developed by Gustavo Deco

leida

Matlab code to run leading eigenvector dynamics analysis (LEiDA) as described in "The dynamics of functional brain networks associated with depressive symptoms in a nonclinical sample" S Alonso Martinez, 2020, based on code developed by Joana Cabral

pcca

Matlab code to run the analysis as described in "Can fMRI functional connectivity index dynamic neural communication?", S Alonso Martinez, 2021. Dependencies: HMM-MAR toolbox

reproduciblehmm

Code used in Alonso and Vidaurre (2023) "Stability of dynamic FC estimates in neuroimaging and electrophysiology: solutions and limits"

rrmdd

Matlab code to run leading eigenvector dynamics analysis (LEiDA) as described in "Segregation of dynamic resting-state reward, default mode and attentional networks after remitted patients transition into a recurrent depressive episode", based on code developed by Joana Cabral

spikes

cortex lab code for electrophysiology

ttvfc

Targeted Time-Varying FC (TTVFC), a new approach that explicitly models the temporal dynamics of targeted-network connections rather than whole-network connections.