Electrophysiology-Tutorial-for-Neuroscience_jp

This repository contains a Japanese version of a published repository "Electrophysiology tutorial for neuroscience" by Shubo Chakrabarti htt

Electrophysiology-Tutorial-for-Neuroscience_jpThis repository contains a Japanese version of a published repository "Electrophysiology tutorial for neuroscience" by Shubo Chakrabarti

Electrophysiology-Tutorial-for-Neuroscience

This is a tutorial for key data analysis steps used by neuroscientists - filtering, spike extraction, PCA, clustering, and spectral analysis

Clarinet

Electrophysiology data analysis

Clarinet is a MATLAB^® app designed to analyze electrophysiology experiments.Developed for neuroscience research, Clarinet allows you to analyze neuronal signals acquired with a variety of

Quantitative Cardiac Electrophysiology App

App developed for cardiac electrophysiology research

Application developed for cardiac electrophysiology research. By David de Diego Maffrand, at ITACA institute, UPV.

Symphony

Data Acquisition System

WinWCP MATLAB Importer

Import and Plot WinWCP Patch Clamp Electrophysiology Files into MATLAB

The Open-Source Electrophysiological Toolbox

A toolbox for biological signal modeling and processing, written mainly in Matlab

bombcell

Automated manual curation and cell classification of spike-sorted electrophysiology data in MATLAB. Fine-tuned for kilosorted Neuropixels da

! 💣 Manual curation of electrophysiology spike sorted units is slow, laborious, and hard to standardize and reproduce. Bombcell is a powerful toolbox that addresses this problem, evaluating the

CardioMat

A Matlab toolbox for cardiac electrophysiology simulations

# CardioMatA Matlab toolbox for cardiac electrophysiology simulations## IntroductionCardioMat is a Matlab toolbox for cardiac electrophysiology simulation focused on patient-specific modeling. It

sg-s/kontroller

Wrapper for MATLAB DAQ. Easy recording, instrument control for experiments. e.g. electrophysiology.

Kilosort

Fast and accurate spike sorting toolbox

Brainstorm

Brainstorm: Open source application for MEG/EEG data analysis

Brainstorm is a collaborative, open-source application dedicated to the analysis of brain recordings: MEG, EEG, fNIRS, ECoG, depth electrodes and animal electrophysiology. Our objective is to share a

Data Browser

A utility to browse data files that involve one or more channels of data over time.

SpikeSimulationTool

Single electrode extracellular recording simulator

cengique/pandora-matlab

Plotting and Analysis of Neuroscience Database-Oriented Research Applications

PANDORA is a Matlab Toolbox for analyzing neuronal electrophysiology data and constructing databases. PANDORA: Makes database management accessible from your electrophysiology project; Works

openep-core

Core OpenEP code - Matlab implementation

OpenEP is a free and feature-full implementation of data parsing and analysis tools for cardiac electrophysiology research. OpenEP Data Parsing Modules allow proprietary data formats from major

MEAnalyzer

Anakyze spike trains exported from multi-electrode arrays

Psth

Computes the peri-stimulus time histogram for neural spike times

fcollman/abfload

a version of abfload which is capable of reading abf 2.0 files

Joint analysis of extracellular spike waveforms and neuronal network bursts

Required analysis codes for the joint analysis which we have introduced in Kapucu et al. (2015).

doseResponse

Plots dose/response curve and calculates EC50 and Hill Coefficient.

Spike Raster Plot

A spike raster plot from spike time stamps with optional trial and group data.

Rasterplot

Plotting Routine to display neural spike trains

MLIB - toolbox for analyzing spike data

Set of functions for the basic analysis of spike data from neurophysiological experiments

derekjgriffith/matlab-modtran-5

A class wrapper for the MODTRAN 5 atmospheric radiative transfer code.

Analogue Front End Model for Developing Neural Spike Sorting Systems

A behavioural model for Analogue Front End for developing neural spike sorting systems

Channel1401_Streaming

Real time channel streaming with the CED's Power1401 device.

spike_times(trace,threshold1)

Detection of location of spike times

Spike Train Regularity Analysis

Implements an improved regularity analysis for spike trains obtained from auditory neurons.

SynapticConductance

Estimating inhibition, excitation and total synaptic conductance from intracellular recordings.

Flexible and Fast Spike Raster Plotting

Plots spike rasters from spike times or binary trains. Faster than most implementations.

abfload

abfload imports data in the Axon abf format (three different recording modes).

Endothelial Cell Model

An interactive GUI for an endothelial cell model.

membrane electrophysiology and calcium dynamics to investigate EC responses to various stimuli. It also expands on previous formulations by including more detailed transmembrane current descriptions.To

Ventricular guinea-pig action potential

Simulink implementation of a sophisticated ventricular action potential

myocyte electrophysiology: a theoretical investigation.Biophys J. 2007 92:1522-1543.The action potential is elicited by the block named Stimulus : 1 Hz is the initial condition.Initial conditions of the

spike_remove

This function identifies and removes spikes fra a trace of and membrane potential recording.

Peaker Analysis Toolbox

Toolbox for the analysis of spontaneous and evoked synaptic currents or potentials.

probeGeometry_headstage_GUI

An interactive GUI to generate Excel CSV files used to generate .prb and .hstg files to be used for Allego Radiens XDAQ software

Automated patch clamp

An automated system to obtain patch clamp recordings from neurons in awake behaving mice.

Hodgkin-Huxley-like Model Neuron

Demo simulator of a firing biological neuron.

Tracking neurons over multiple days

Algorithm from Fraser and Schwartz, "Recording from the same neurons chronically in motor cortex"

mPhys

Software for acquisition and manipulation of electrophysiological data from neurons.

ssvkernel(x,tin)

Kernel density estimation with bandwidths locally adapted to data.

BioSig - A toolbox for biomedical signal processing

BioSig supports about 50 different data formats, and provides numourous tools for the analysis of electrophysilological data.

), electrooculogram (EOG), electromyogram (EMG), respiration, patch-clamp electrophysiology. Major application areas are: Neuroinformatics, brain-computer interfaces, neurophysiology, psychology, cardiovascular systems

Read Intan Technologies Files

Read files generated by the Intan Technologies GUI for recording multichannel data.

HEKA Patchmaster Importer

Matlab class to import HEKA Patchmaster files

Two-Syringe MED Perfusion System

Instructions and m-files for setting up a remote-controlled multielectrode dish perfusion system.

Axon_Initial_Segment_Identifier(path,ic_signal,ec_signal)

Function to identify the axon initial segment from dendrites using electrophysiological recording

Postsynaptic Potential Detector

Detect postsynaptic currents or potentials

Program to analyze F0 of speech ABR in Matlab

This code can be used to spectrally analyze a an ABR ASCII waveform by windowing and zero padding.

Sodium Imaging

These files are used to obtain and analyze Sodium fluorescent recordings

-The tsm2mat is used to convert .tsm files into .mat-The Analog_IV file is used to record electrophysiology data during the fluorescent imaging.-The ImageAligne file is used to align images to

Neuropixel Utils

Utilities for managing Neuropixel SpikeGLX datasets, Kilosort2 sorting, waveform extraction and other tools

Spectral entropy based neuronal network synchronization analysis : CorSE

This algorithm calculates the correlated spectral entropy (CorSE) based functional connectivity.

SqueakySpk v0.1

SQUEAKYSPK: Matlab class for making extracellular, microelectrode array data squeaky clean.

paramsNeurofit - import parameters from Neurofit

Extract Hodgkin-Huxley type ion channel parameters from a Neurofit report file.

VERTEX Simulator

Detailed simulation of neural activity in three-dimensional patches of brain tissue

getLinearIndependentCell(A,ignore_constant_shift)

Identifies groups of linearly independent columns in a cell array A

readPLXFileC

A MEX function to read a PLX data file (Plexon, Inc.).

Brain-Observatory-Toolbox

A MATLAB toolbox for interacting with the Allen Brain Observatory

Sinc Resample

SincResample resamples signals to arbitrary lengths/frequencies and/or timeshifts them

open-ephys-matlab-tools

Matlab code for interacting with the Open Ephys GUI.