jyotikab

stn_gpe_ssbn

Code for the paper "Uncoupling the roles of firing rates and spike bursts in shaping the GPe-STN beta band oscillations"

cbgt2

rewrite of a basal ganglia simulator

CBGTPy

Rewrite of a basal ganglia simulator by Matthew Clapp.

hmmlearn

Hidden Markov Models in Python, with scikit-learn like API

manim

A community-maintained Python framework for creating mathematical animations.

striatal-action-value-neurons-reconsidered-codes

here you can find the codes for the paper by this name in elife (2018)

CaImAn

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

CBGT_maximize_RR

Code and analysis scripts for manuscript - "How cortico-basal ganglia-thalamic subnetworks can shift decision policies to maximize reward rate"

cerebellarMaps

Python-based scripts used for analysis of cerebellar maps in Spaeth et al.

comparing-trajectory-clustering-methods

Comparing Different Clustering Methods and Similarity Metrics on Trajectory Datasets

dPCA

An implementation of demixed Principal Component Analysis (a supervised linear dimensionality reduction technique)

dynamic_decision_policy_reconfiguration

Data, analyses, and visualizations for paper: https://www.biorxiv.org/content/10.1101/2020.11.27.401737v1

EEG-Datasets

A list of all public EEG-datasets

glmhmm

code to fit GLMs, HMMs, and GLM-HMMs (aka IO-HMMs)

HMM-MAR

Toolbox for segmentation and characterisation of transient connectivity

Homology_BG

Code for Homology Manuscript

loki_1

BG network responses to conflict and volatility + perceptual learning of hierarchical classes.

PyEMD

Python implementation of Empirical Mode Decompoisition (EMD) method

retreat

sbi

Simulation-based inference in PyTorch

SpectralPowerFitting

Optimal Model Parameter Estimation From EEG Power Spectrum Features Observed During General Anesthesia, Hashemi et al, Neuroinformatics 2018

ssm

Bayesian learning and inference for state space models

stn_gpe_model_data_fit