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anda_hmm_course

appliedmathnotebooks

Collection of notebooks for the Applied Math courses at University of Oregon

contamineuro_2019_spiking_net

Demo scripts for running spiking network simulations and Hidden Markov Model analyses

cortical_processing_speed

This repository is a collection of matlab and python code to reproduce the reproduce the results contained within the manuscript "State-dependent regulation of cortical processing speed via gain modulation". The simulation of the clustered Neural Network is performed in matlab, while the analysis of the Allen Institute Neuropixel dataset is perfomed in python. To run the data analysis, a conda environment is provided for ease of use.

dynamax

State Space Models library in JAX

expectation-spiking-net

Demo script for running spiking network simulations and reproducing Fig. 3a of the model introduced in L. Mazzucato, G. La Camera and A. Fontanini, Expectation-induced modulation of metastable activity underlies faster coding of sensory stimuli, Nature Neuroscience (2019)

multitasking

perturb_spiking_net

Spiking network with E and I clusters

ssm

Bayesian learning and inference for state space models