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updated 1 month ago

Axon_Initial_Segment_Identifier(path,ic_signal,ec_signal) by Anders Victor

Function to identify the axon initial segment from dendrites using electrophysiological recording (electrophysiology, neuroscience, axon)


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updated 6 months ago

spike_remove by Rune W Berg

This function identifies and removes spikes fra a trace of and membrane potential recording. (neuroscience, neuron, action potential)

spike_remove(trace1, prewin, postwin, threshold1)

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updated 6 months ago

Spike_threshold_PS2 by Rune W Berg

Detect spike threshold in membrane potential using phase space V versus dV/dt. (action potential, spikes, threshold)

Spike_threshold_PS2(trace,dt,win, win2, Fc,factordvdt)

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updated 6 months ago

Spike_threshold_PS(trace,dt,win, win2, Fc,factordvdt) by Rune W Berg

Estimating spike threshold in intracellular recordings from neurons. (action potential, neuron, intracellular)

Spike_threshold_PS(trace,dt,win, win2, Fc,factordvdt)

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updated 6 months ago

spike_times(trace,threshold1) by Rune W Berg

Detection of location of spike times (action potential, spikes, detection)


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updated 7 months ago

findInRange by Joseph O'Doherty

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


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updated 8 months ago

Easily Simulate a Customizable Network of Spiking Leaky Integrate and Fire Neurons by Zachary Danziger

Design and simulate your LIF neuron network in only a few lines of code. (signal processing, neural networks, neuroscience)


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updated 1 year ago

AIS quantification by Matthew Grubb

Quantitative measures of the axon initial segment (AIS) (neuroscience, neuron, ais)




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updated 1 year ago by Aleksander Bapst

Extract dimensions of Utah array electrodes from .TIF SEM images (utah array, microelectrodes, sem)

calculateEllipse(x, y, a, b, angle, steps)



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updated 1 year ago

Flexible and Fast Spike Raster Plotting by Jeffrey Chiou

Plots spike rasters from spike times or binary trains. Faster than most implementations. (biotech, data exploration, neuroscience)



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updated 1 year ago

Dual quaternion toolbox by Guillaume Leclercq

This toolbox provides dual quaternion methods, focusing on 3D kinematics for points and lines. (quaternion, dual quaternion, geometric algebra)




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updated 2 years ago

MatClust by Mattias Karlsson

Spike sorting program for extracellular recordings. Version 1.4 (spike sorting, neuroscience, clustering)




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updated 2 years ago

spikegauss: continuous firing rate time series from discrete spiketimes by R P

R P (view profile)

Generate spike vector time series (SPKVEC) from the TIMESTAMPS of the spikes. (neuroscience, convolution, gaussian)


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updated 2 years ago

CellSort by Eran Mukamel

Toolbox for automated sorting of cellular calcium signals from optical imaging data. (neuroscience, image processing, signal processing)



CellsortApplyFilter(fn, ica_segments, flims, movm, subtra...

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updated 3 years ago

Gabor function by Niru Maheswaranathan

Generates a 2D spatial Gabor function. Useful for generating model simple cell receptive fields. (gabor, function, image processing)


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updated 3 years ago

Import of log files created by Presentation by Tobias Otto

This function imports log files created by Presentation into MATLAB for analysis. (neuroscience, presentation, log file)

importPresentationLog(fileName, extraNames)

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updated almost 4 years ago

Tracking neurons over multiple days by George Fraser

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



computeCorrScore(correlations, survival)

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updated 4 years ago

erp_reject by Luca Citi

Rejection of outlier trials from Event-Related Potential (ERP) studies (signal processing, medical, statistics)

erp_reject(erp, baseline_int, strip_g, out_max)


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updated 4 years ago

CeItrConnGUI by Gal Haspel

This GUI is used to study the iterativity of connections within the locomotion network of C. elegans (c elegans, neuronal network, connectivity)


CIC_MNtoMN(MuscleBin, NeurConnNames, NeurConnNumbs, MNnam...

CIC_NMJs(MuscleBin, MNnamesSrc, FPNumbs, FPNames, MNnames...

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updated 4 years ago

Spike Train Regularity Analysis by Matthew Wright

Implements an improved regularity analysis for spike trains obtained from auditory neurons. (neuroscience, spike train, hearing)


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updated 4 years ago

create_mosaic.m by Simon Robinson

Simon Robinson (view profile)

create_mosiac.m - Create tiled "mosaic" images from volumes (mri, fmri, nifti)

centre_and_save_nii(image_nii, filename, pixdim)


load_nii(filename, img_idx, dim5_idx, dim6_idx, dim7_idx,...

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updated 4 years ago

Univariate and bivariate spiking statistics for the dLIF neuron model by Robert

Robert (view profile)

Functions to calculate the statistics for the dLIF neuron model. (neuroscience, integrateandfire, spike train)




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updated almost 5 years ago

Raster and PETH Simple Version by Sisi Ma

Sisi Ma (view profile)

Raster and PETH for neuroscientists and others :) (signal processing, data exploration, biotech)



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updated 5 years ago

paramsNeurofit - import parameters from Neurofit by Cengiz Gunay

Extract Hodgkin-Huxley type ion channel parameters from a Neurofit report file. (neurofit, hodgkinhuxley, channel)

paramsNeurofit(file_name, props)

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updated 5 years ago

MATRIS v0.10.10.09sb for Windows by Mingjing Zhang

Mingjing Zhang (view profile)

A Full-Fledged MATLAB Based Tetris Game like none you've ever seen! (tetris, game, psychtoolbox)


addTetradToPlayfield(blkMatrix, TetradX, TetradY, colorIn...

checkTetradOverlapping(blkMatrix, TetradX, TetradY)

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updated 5 years ago

Discrete-time cross-correlogram by Alex Wiltschko

Cures cross-correlograms and headaches!* *note: does not actually cure headaches. (crosscorrelogram, neuroscience, autocorrelogram)

crosscorrelogram(ts1, ts2, window)

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updated 5 years ago

SqueakySpk v0.1 by Jon Newman

SQUEAKYSPK: Matlab class for making extracellular, microelectrode array data squeaky clean. (neuroscience, action potential, electrophysiology)



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updated almost 6 years ago

Spiking Neurons simulator by Massimiliano Versace

This GUi implements the Eugene Izhikevich (2003) spiking equation. (spiking neurons, artificial neural net..., demo)




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updated 6 years ago

spikePlot by Kai

Kai (view profile)

Plotting function for waveform data; window discrimination (neuroscience, window discrimination, raster)

spikePlot(data, Fs)

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updated 6 years ago

SDFConv by Matthew Nelson

Given spike times across trials, create smoothed peri-event hist convolved with a PSP or Gaus kernel (neuroscience, histogram, spike)


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updated 6 years ago

Find Optimal Kernel by Matthew Nelson

Find optimal causal filter kernel that convolves with one time series to approximate another (neuroscience, psychology, filter)



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updated 6 years ago

Align repeated trials of analog data to a variable event by Matthew Nelson

Align matrices of repeated trials of analog data to a variable event without a for loop over trials. (matrices, trial, saccade)


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updated almost 7 years ago

Find Clipped Trials by Matthew Nelson

Find trial indices in which "clipping" occurred for recorded analog data in a trials format (neuroscience, psychology, trials)


getchunks(a, opt)

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updated almost 7 years ago

Minimal Stimulation analysis for pClamp by Chessa Scullin

paired pulse traces from a abf file and make comparisons to an average trace (neuroscience, abf, minimal stimulation)

import_abfminstimfiltered(file, en, dt)



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updated 7 years ago

Two-Syringe MED Perfusion System by Matthew A. I. Ua Cruadhlaoich

Instructions and m-files for setting up a remote-controlled multielectrode dish perfusion system. (biotech, pharmaceutical, multielectrode dish)




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updated 7 years ago

MClust Spike sorting toolbox by A David Redish

Spike sorting toolbox (medical, neuroscience, tetrode)


CalculateFeatures(basename, featureList)


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updated 7 years ago

Postsynaptic Potential Detector by Phil Larimer

Detect postsynaptic currents or potentials (medical, epsp, epsc)

detectPSPs(data, varargin)

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updated almost 8 years ago

Nodose neuron action potential firing. by Vladislav Snitsarev

Model of action potential firing by an A-type nodose neuron (biotech, pharmaceutical, neuron)


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updated 9 years ago

BrainMaps Analyze by Shawn Mikula

BrainMaps Analyze is a powerful tool for applying image analysis routines to high reso (medical, brain, image processing)

bmanalyze( varargin )

bmanalyzeGetPaths( varargin )

bmanalyzeInfo( varargin )

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updated almost 10 years ago

Rasterplot by Rajiv Narayan

Plotting Routine to display neural spike trains (specialized, plotting, rasterplot)

rasterplot(times,numtrials,triallen, varargin)

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updated almost 12 years ago

NESim by Chris Eliasmith

General package for large-scale biologically plausible simulations (with GUI). (neural and fuzzy syst..., neural simulation, neural networks)




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