py-iCSD toolbox! Translation of the core functionality of the CSDplotter MATLAB package to python.
The methods were originally developed by Klas H. Pettersen, as described in: Klas H. Pettersen, Anna Devor, Istvan Ulbert, Anders M. Dale, Gaute T. Einevoll, Current-source density estimation based on inversion of electrostatic forward solution: Effects of finite extent of neuronal activity and conductivity discontinuities, Journal of Neuroscience Methods, Volume 154, Issues 1-2, 30 June 2006, Pages 116-133, ISSN 0165-0270, http://dx.doi.org/10.1016/j.jneumeth.2005.12.005. (http://www.sciencedirect.com/science/article/pii/S0165027005004541)
The method themselves are implemented as callable subclasses of the base CSD class object, which sets some common attributes, and a basic function for calculating the iCSD, and a generic spatial filter implementation.
The raw- and filtered CSD estimates are returned as Quantity arrays.
Requires pylab environment to work, i.e numpy+scipy+matplotlib, with the addition of quantities (http://pythonhosted.org/quantities) and neo (https://pythonhosted.org/neo)-
Original implementation from CSDplotter-0.1.1 (http://software.incf.org/software/csdplotter) by Klas. H. Pettersen 2005.
Written by: - Espen.Hagen@umb.no, 2010, - e.hagen@fz-juelich.de, 2015-2016
elephant.current_source_density_src.icsd.
CSD
(lfp, f_type='gaussian', f_order=(3, 1))[source]¶Bases: object
Base iCSD class
Methods
elephant.current_source_density_src.icsd.
DeltaiCSD
(lfp, coord_electrode, **kwargs)[source]¶Bases: elephant.current_source_density_src.icsd.CSD
delta-iCSD method
Methods
elephant.current_source_density_src.icsd.
SplineiCSD
(lfp, coord_electrode, **kwargs)[source]¶Bases: elephant.current_source_density_src.icsd.CSD
spline iCSD method
Methods
elephant.current_source_density_src.icsd.
StandardCSD
(lfp, coord_electrode, **kwargs)[source]¶Bases: elephant.current_source_density_src.icsd.CSD
Standard CSD method with and without Vaknin electrodes
Methods
elephant.current_source_density_src.icsd.
StepiCSD
(lfp, coord_electrode, **kwargs)[source]¶Bases: elephant.current_source_density_src.icsd.CSD
step-iCSD method
Methods