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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

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

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

Symphony

Version 2.2.3.0

by Mark Cafaro

Data Acquisition System

WinWCP MATLAB Importer

Version 1.2.0.0

by David

Import and Plot WinWCP Patch Clamp Electrophysiology Files into MATLAB

App developed for cardiac electrophysiology research

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

electroCUDA

Version 0.0.200

by Kevin Tan

Robust pelectrophysiology tools with GPU acceleration

for electrophysiology. Core features include noise-resistant signal processing, robust statistics & extensive hardware acceleration.ElectroCUDA is intended for any multichannel field potential

sg-s/kontroller

Version 1.1.0.0

by srinivas.gs

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

bombcell

Version 1.6.0

by Julie Fabre

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

💣 Bombcell: find bombshell cells! 💣 Manual curation of electrophysiology spike sorted units is slow, laborious, and hard to standardize and reproduce. Bombcell is a powerful toolbox that addresses

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

Kilosort

Version 1.0.0.0

by Marius Pachitariu

Fast and accurate spike sorting toolbox

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

Brainstorm

Version 3.4.0.0

by Martin Cousineau

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

Version 1.0.0.0

by Phil Larimer

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

Psth

Version 1.0.0.0

by Rajiv Narayan

Computes the peri-stimulus time histogram for neural spike times

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

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

MEAnalyzer

Version 2023.01.16

by Raha Dastgheyb

Anakyze spike trains exported from multi-electrode arrays

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

doseResponse

Version 1.2.0.0

by Ritchie Smith

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

Rasterplot

Version 1.0.0.0

by Rajiv Narayan

Plotting Routine to display neural spike trains

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

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

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

Detection of location of spike times

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

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

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

abfload

Version 1.4.0.0

by Harald Hentschke

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

spike_remove

Version 1.0.0.0

by Rune W Berg

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

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

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

Demo simulator of a firing biological neuron.

mPhys

Version 1.2.0.0

by Phil Larimer

Software for acquisition and manipulation of electrophysiological data from neurons.

Kernel density estimation with bandwidths locally adapted to data.

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

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

Matlab class to import HEKA Patchmaster files

Identifies groups of linearly independent columns in a cell array A

Detect postsynaptic currents or potentials

A MATLAB implementation of the DeepInterpolation principle.

. The resulting prediction is free of independent noise such as shot noise (imaging) or thermal noise (electrophysiology). If the signal is well predicted by these preeceding and succeeding frames, as in

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

SqueakySpk v0.1

Version 1.0.0.0

by Jon Newman

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

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

readPLXFileC

Version 1.0.0.0

by Benjamin Kraus

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

A MATLAB toolbox for interacting with the Allen Brain Observatory

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

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

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

Matlab code for interacting with the Open Ephys GUI.

Obtains the current source density from local field potential data recorded from a linear electrode array

MClust

Version 4.5

by A David Redish

MClust is a Matlab-based spike sorting toolbox for the separation of putative cells from multi-site neurophysiological recordings. It is pa

APanalysis

Version 1.2.0.0

by Roman Popov

Calculates AP amplitude and timing, half-widths, threshold voltage, and frequency of firing

spikesort

Version 1.0.0

by Matt Smith

Matlab-based spike sorter for NEV files

Automated analysis of spike count frequency, io curves and AP properties from WinWCP files.

Raster and PETH for neuroscientists and others :)

Spike Extraction Tool

loadVclampAbf

Version 1.0.0.0

by Cengiz Gunay

Load I and V traces from a pClamp ABF file that contains voltage clamp data

ReadNVT

Version 1.0.0.0

by Forrest Collman

Reads in a Neuralynx NVT Cheetah binary file into Matlab

findInRange

Version 1.4.0.0

by Joseph O'Doherty

Find elements within many ranges. Faster than find() for large N. Useful for PSTHs and rasterplots.

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