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aibsopt

Optical projection tomography microscope for isotropic whole-brain imaging

arduino-shield-scaffold

Arduino Shield Scaffold (template) for PCB123, and eventually perhaps other PCB CAD systems too.

arte-ephys

Soft realtime electrophysiology setup

awesome_neuropixels

A curated list of awesome Neuropixels resources.

bentomat

A gui for browsing joint calcium imaging + behavioral data.

best-websites-a-programmer-should-visit

:link: Some useful websites for programmers.

bonsai_workflows

A collection of bonsai workflows developed at the Allen Institute

cebra

Learnable latent embeddings for joint behavioral and neural analysis - Official implementation of CEBRA

chronic-neuropixels-protocol

Repo requested by Cagatay Aydin (for a paper)

clusterless

Clusterless Decoding Source code from J Neurophysiol. 2014 Jan 1; 111(1): 217–227

cnnrippledetectoroeplugin

Custom plug-in to use the CNN to detect ripples in the Open Ephys recording software.

cortical-layers

Automatically detecting cortical layers of MICrONS segmentation data

cyclops

Precision current source, with optional optical feedback, for driving high power LEDs

data_replay_coordination_to_rtc_pfc_states

preprint research article

deepinsight

A general framework for interpreting wide-band neural activity

deepinterpolation

deeplabcut

Markerless tracking of user-defined features with deep learning

detect

MATLAB toolbox for continuous event detection

dm2021

Matlab package for analyzing neurophysiological datasets including spike, EEG (LFP), and behavioral data.

dynam-o

DYNAM-O: Dynamic Oscillation Toolbox v1.0 - Prerau Laboratory (sleepEEG.org)

dynasim

DynaSim toolbox for modeling and simulating dynamical systems

elife_2015

export_fig

A MATLAB toolbox for exporting publication quality figures

fieldtrip

The MATLAB toolbox for MEG and EEG analysis

fmatoolbox

The Freely Moving Animal (FMA) Toolbox is a Matlab toolbox. Its purpose is to help analyze electrophysiological and behavioral data recorded from freely moving animals.

git-tutorial

glm-cfc

A GLM based approach to measure CFC

graphene-electrode-seizures

gui

Software for electrophysiology data acquisition

hippocampalswrdynamics

Code for Krause and Drugowitsch (2022). "A large majority of awake hippocampal sharp-wave ripples feature spatial trajectories with momentum". Neuron.