title: Additional efficient computation of branched nerve equations: adaptive time step and ideal voltage clamp.
abstract: Various improvements are described for the simulation of biophysically and anatomically detailed compartmental models of single neurons and networks of neurons. These include adaptive time-step integration and a reordering of the circuit matrix to allow ideal voltage clamp of arbitrary nodes. We demonstrate how the adaptive time-step method can give equivalent accuracy as a fixed time-step method for typical current clamp simulation protocols, with about a 2.5 reduction in runtime. The ideal voltage clamp method is shown to be more stable than the nonideal case, in particular when used with the adaptive time-step method. Simulation results are presented using the Surf-Hippo Neuron Simulation System, a public domain object-oriented simulator written in Lisp.
authors.affiliation: Unité de Neurosciences Integratives et Computationelles, Institut Alfred Fessard--CNRS, Gif-sur-Yvette, France. lyle@cogni.iaf.cnrs-gif.fr
authors.forename: L J
authors.initials: LJ
authors.lastname: Borg-Graham
mesh_terms: D002451:Cell Compartmentation / Q000502:physiology; D002490:Central Nervous System / Q000166:cytology / Q000502:physiology; D003712:Dendrites / Q000502:physiology; D008564:Membrane Potentials / Q000502:physiology; D008959:Models, Neurological; D009415:Nerve Net / Q000502:physiology*; D009474:Neurons / Q000502:physiology*; D017711:Nonlinear Dynamics; D018408:Patch-Clamp Techniques; D012984:Software; D013997:Time Factors