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analysis-tools

Code for analyzing data saved by the Open Ephys GUI

artmap-model

Code for the creation of an ARTMAP (adaptive resonance theory) 3-layer neural network

basler_acquisition

Simple codebase to acquire video data from a Basler high-speed and write to disk.

bayesian-statistics

Tools related to practical applications of Bayesian statistics

caiman

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

compstats

MA 589 Computational Statistics Code, Luis Carvalho

conv-neural-net

Code to implement a convolutional neural network.

cpp

Code from CPP and C tutorials

eyetracker

Code to take .avi video files, detect pupil area, pupil location, and also gaze direction

fastasd

Fast inference for high-D receptive fields using Automatic Smoothness Determination (ASD)

git-introduction

A brief introduction to git and GitHub

integrate-and-fire-neuronal-model

This MATLAB code simulates an integrate-and-fire neuron and displays the effects of parameter changes in an animation.

jvhw_entropy_estimators

MATLAB and Python 2.7/3 Implementations of the JVHW entropy and mutual information estimators in Jiao, Jiantao, Kartik Venkat, Yanjun Han, and Tsachy Weissman. "Minimax estimation of functionals of discrete distributions." IEEE Transactions on Information Theory 61, no. 5 (2015): 2835-2885.

kinect_mousetracker

Use the XBOX Kinect2 for mouse behavioral tracking.

lnp_model

Fit Linear-Nonlinear-Poisson Model to neural data

ma568_pointprocesses

Code from Uri's point process class

minimaltransitionprobsmodel

mounsortpipeline

Processing pipeline for single-unit EPHYS recordings using a plexon system and MountainSort.

mountainsort

Spike sorting software

mousekinect

Code to track a mouse and quantify behavior using an XBOX Kinect

multitaper_toolbox

A multitaper spectral estimation toolbox implemented in Matlab, Python, and R

nazer_neuraldata

Code from EC700 course with Bobak Nazer: Large-Scale Neural Data Analysis

neuralprediction_challenge

Analysis of Data from the Neural Prediction Challenge http://neuralprediction.berkeley.edu/index.php

npy-matlab

Experimental code to read/write NumPy .NPY files in MATLAB

perceptron-model

Perceptron Model to Classify Handwritten Digits

plugin-gui

Open Ephys GUI with plugin architecture

psychtoolbox-visualstimuli

Code for arbitrary generation of visual stimuli using openGL and the PsychToolBox.

restrict_plasticity

Repository for visual stimulation and analysis of plasticity experiments. Following up on the studies of stimulus-selective response potentiation (SRP), we show a smaller stimulus that is restricted to a small region of visual space. See Cooke & Bear 2010.

retinotopic-mapping

Code to display visual stimuli and analyze data to determine retinotopy of an LFP recording electrode.

reverse-correlation

Visual stimuli and analysis code to determine the linear, spatial receptive field of individual neurons.