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Python in neuroscience

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Martin Spacek and Nicholas Swindale

20 July 2009

A widely used open-source programming language, Python is becoming the language of choice for neural data analysis and simulation.




Authors

Martin Spacek
Ophthalmology and Visual Sciences, University of British Columbia
http://swindale.ecc.ubc.ca

Martin Spacek is a PhD candidate in neuroscience.

Nicholas Swindale
Ophthalmology and Visual Sciences, University of British Columbia

Nicholas Swindale is a professor of Ophthalmology and Visual Sciences.


References
  1. http://scipy.org/Topical_Software. List of Python scientific packages. Accessed 04 May 2009

  2. M. Hanke, Y. O. Halchenko, P. B. Sederberg, E. Olivetti, I. Fründ, J. W. Rieger, C. S. Herrmann, J. V. Haxby, S. J. Hanson and S. Pollmann, PyMVPA: a unifying approach to the analysis of neuroscientific data, Front. Neuroinform. 3 (3), 2009. http://pymvpa.org

  3. D. Goodman and R. Brette, Brian: a simulator for spiking neural networks in Python, Front. Neuroinform. 2 (5), 2008. http://brian.di.ens.fr

  4. http://www.scipy.org/PerformancePython. Python's scientific performance compared to that of other languages. Accessed 07 May 2009.

  5. http://en.wikipedia.org/wiki/Object-oriented_programming. Object-oriented programming article at Wikipedia. Accessed 05 May 2009.

  6. M. A. Spacek, T. J. Blanche and N. V. Swindale, Python for large-scale electrophysiology, Front. Neuroinform. 2 (9), 2009. http://swindale.ecc.ubc.ca/code

  7. T. J. Blanche, M. A. Spacek, J. F. Hetke and N. V. Swindale, Polytrodes: high-density silicon electrode arrays for large-scale multiunit recording, J. Neurophysiol. 93, pp. 2987-3000, 2005.

  8. http://en.wikipedia.org/wiki/Spike-triggered_average. Spike-triggered average article at Wikipedia. Accessed 07 May 2009.


 
DOI:  10.2417/1200907.1682

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