CureQ 0.1.3

Library for analyzing MEA files.

CureQ

This is the repository of the CureQ consortium.
This repository contains a library with functions for analyzing MEA files.
This repository is maintained by the Amsterdam University of Applied Sciences (AUMC).
More information: https://cureq.nl/

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Install the library

Open a terminal and navigate to your home folder.

Install library with pip

Install the MEA analyzer with the following command when you are using Pip:

pip install CureQ 

Install library with conda

Install the MEA analyzer with the following command when you are using Conda:

conda install CureQ::CureQ

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Library usage

Now you can try the CureQ library functions in your Python environment.
Import the function you need, call this function and watch how the pipeline analyzes your MEA file!

Example for analyzing MEA electrodes

from CureQ.mea import analyse_electrode          # Library function for analyzing electrodes

file_path = 'path/to/your/mea_file.h5'           # Path to your MEA file
hertz = 20000                                    # Sampling frequency of MEA system
electrodes = [109, 110]                          # Electrodes to be analyzed
analyse_electrode(file_path, electrodes, hertz)  # Analyzes specified electrodes in the MEA file

Example for analyzing a MEA well

from CureQ.mea import analyse_well               # Library function for analyzing wells

file_path = 'path/to/your/mea_file.h5'           # Path to your MEA file
hertz = 20000                                    # Sampling frequency of MEA system
wells = [10]                                     # Wells to be analyzed
analyse_well(filename, wells, hertz)             # Analyzes specified wells in the MEA file

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Example visualisations of the MEA analysis pipeline

Spike detection

Inter-spike interval

Single burst detection

Network burst detection