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acquisition2p_class

For managing 2P imaging datasets from preprocessing to activity trace extraction

allenccf

Tools to work with Allen Inst CCF data in matlab

analysis-tools

Code for analyzing data saved by the Open Ephys GUI

arduinointerface

A simple MATLAB interface for bidirectional communication with an Arduino.

brian2

Brian is a free, open source simulator for spiking neural networks.

ca_source_extraction

Matlab implementation of a source extraction and spike inference algorithm for large scale calcium imaging data analysis, based on a constrained matrix factorization approach.

cellpose

a generalist algorithm for cellular segmentation

course-content

Summer course content for Neuromatch Academy

dl-mbl-2022

Exercise repository for the "Deep Learning for Microscopy Image Analysis" course at the MBL.

ell_models

matlab code for running ELL models

facemap

matlab GUI for processing face camera data from rodents

helenxhou.github.io

:sparkles: Build a beautiful and simple website in literally minutes.

kcsd-python

Kernel Current Source Density

kilosort

GPU code for spike sorting

lidaie

fig6 models

mante2013pipeline

mbl-nsb-toolbox

Matlab/octave toolbox for the MBL Neural Systems and Behavior course

nma2020python

Python for Computational Neuroscience - Teaching material for NMA

npy-matlab

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

nsb2016

NS&B 2016 hippocampus cycle codebase

nwb_tutorial

Tutorials for learning NWB

obstaclerig

scripts for controlling obstacle experiments - will include arduino code, and maybe spike and bonsai configs as well

phy

Modules for manual spike sorting GUIs, ephys data analysis, visualization

plugin-gui

Open Ephys GUI with plugin architecture

ppatternanalysis

pythondatacourse

[WIP] Course on Python data pipelines

songexplorer

deep learning for acoustic signals

sortingquality

Functions to assess quality of spike sorting results

spikes

cortex lab code for electrophysiology

spiketutorials

Tutorials for using SpikeInterface on extracellular datasets.