https://github.com/mrkrd/cochlear_nucleus

Computational models of the globular bushy cells in the ventral cochlear nucleus
https://github.com/mrkrd/cochlear_nucleus

brian cochlear-nuclues computational-neuroscience endbulb-of-held globular-bushy-cells model neuron plasticity python synapse synaptic-depression

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Computational models of the globular bushy cells in the ventral cochlear nucleus

• Host: GitHub
• URL: https://github.com/mrkrd/cochlear_nucleus
• Owner: mrkrd
• License: gpl-3.0
• Created: 2017-03-02T19:02:31.000Z (over 7 years ago)
• Default Branch: master
• Last Pushed: 2019-04-19T20:17:58.000Z (over 5 years ago)
• Last Synced: 2024-10-13T14:45:59.901Z (about 1 month ago)
• Topics: brian, cochlear-nuclues, computational-neuroscience, endbulb-of-held, globular-bushy-cells, model, neuron, plasticity, python, synapse, synaptic-depression
• Language: Python
• Homepage:
• Size: 205 KB
• Stars: 3
• Watchers: 2
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.rst
  • License: COPYING.txt

Awesome Lists containing this project

README

        
cochlear_nucleus

================

A Python package implementing computational models of the `globular

bushy cells`_ (GBCs) in the mammalian `ventral cochlear nucleus`_.

Phenomenological models of endbulbs of Held with with short term

synaptic depressions are also included.

.. _`globular bushy cells`: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2518325/

.. _`ventral cochlear nucleus`: https://en.wikipedia.org/wiki/Ventral_cochlear_nucleus

Usage

-----

Look for examples in the examples_ directory (e.g. nrn_gbc_demo.py and

nrn_gbc_demo_with_default_weights.py).  Note that some examples

require cochlea_ to be installed.

.. _examples: https://github.com/mrkrd/cochlear_nucleus/tree/master/examples

.. _cochlea: https://github.com/mrkrd/cochlea

Installation

------------

Install the dependencies:

- Python 2.7

- Numpy

- NEURON (with Python bindings): http://neuron.yale.edu/neuron/

- Brian: http://briansimulator.org/

Clone the git repo with::

  git clone https://github.com/mrkrd/cochlear_nucleus.git

  cd cochlear_nucleus

Compile NEURON's models::

  make

or manually::

  cd cochlear_nucleus/nrn && nrnivmodl

  cd -

Install the package itself::

  python setup.py develop --user

Citing

------

Rudnicki M. and Hemmert W. (2017).  *High entrainment constrains

synaptic depression levels of an in vivo globular bushy cell model*.

Frontiers in Computational Neuroscience, Frontiers Media SA, 2017, 11,

pp. 1-11.

doi:10.3389/fncom.2017.00016

https://www.frontiersin.org/articles/10.3389/fncom.2017.00016/full

BibTeX entry::

  @Article{Rudnicki2017,

    author    = {Marek Rudnicki and Werner Hemmert},

    title     = {High Entrainment Constrains Synaptic Depression Levels of an In vivo Globular Bushy Cell Model},

    journal   = {Frontiers in Computational Neuroscience},

    year      = {2017},

    volume    = {11},

    pages     = {1--11},

    month     = {mar},

    doi       = {10.3389/fncom.2017.00016},

    publisher = {Frontiers Media {SA}},

    url       = {https://www.frontiersin.org/articles/10.3389/fncom.2017.00016/full},

  }

Acknowledgments

---------------

This work was supported by the German Research Foundation (DFG) within

the Priority Program “Ultrafast and temporally precise information

processing: normal and dysfunctional hearing” SPP 1608 (HE6713), the

Technische Universität München within the funding programme Open

Access Publishing, and the German Federal Ministry of Education and

Research within the Munich Bernstein Center for Computational

Neuroscience (reference number 01GQ1004B).

License

-------

The project is licensed under the GNU General Public License v3 or

later (GPLv3+).