LFPy is a Python module for simulations of extracellular field potentials
LFPy provides a set of easy-to-use Python classes for setting up your model, running your simulations and calculating the extracellular potentials arising from activity in your model neuron. If you have a model working in NEURON already, it is likely that it can be adapted to work with LFPy.
The extracellular potentials are calculated from transmembrane currents in multi-compartment neuron models using the line-source method (Holt & Koch, J Comp Neurosci 1999), but a simpler point-source method is also available. The calculations assume that the neuron are surrounded by an infinite extracellular medium with homogeneous and frequency independent conductivity, and compartments are assumed to be at least at a minimal distance from the electrode (which can be specified by the user). For more information on the biophysics underlying the numerical framework used see this coming book chapter:
- K.H. Pettersen, H. Linden, A.M. Dale and G.T. Einevoll: Extracellular spikes and current-source density, in Handbook of Neural Activity Measurement, edited by R. Brette and A. Destexhe, Cambridge, to appear [preprint PDF, 5.7MB]
In the present version LFPy is mainly designed for simulation of single neurons.
LFPy was developed in the Computational Neuroscience Group, Department of Mathemathical Sciences and Technology, at the Norwegian University of Life Sciences , in collaboration with the Laboratory of Neuroinformatics, Nencki Institute of Experimental Biology, Warsaw, Poland. The effort was supported by International Neuroinformatics Coordinating Facility (INCF) and the The Research Council of Norway (eScience, NevroNor).
This scientific software is released under the GNU Public License GPLv3.
LicenseGNU General Public License
PrerequirementsLFPy requires the Python programming environment, with Numpy, Scipy, Matplotlib and Cython. It also requires NEURON installed as a Python module. See detailed installation instructions on http://compneuro.umb.no/LFPy, and www.neuron.yale.edu for NEURON.
Ease of UseIntermediate
Keywordslocal field potentials, extracellular field potentials, EEG, NEURON, Python, LFP,
External web sitehttp://compneuro.umb.no/LFPy
- Mar 14, 2012
- Last Modified:
- Mar 14, 2012