ModelDB: Dendritica (Vetter et al 2001)

Dendritica (Vetter et al 2001)

Accession: 7907

Dendritica is a collection of programs for relating dendritic geometry and signal propagation. The programs are based on those used for the simulations described in: Vetter, P., Roth, A. & Hausser, M. (2001) For reprint requests and additional information please contact Dr. M. Hausser, email address: m.hausser@ucl.ac.uk
Reference: Vetter P, Roth A, Hausser M (2001) Propagation of action potentials in dendrites depends on dendritic morphology. J Neurophysiol 85:926-37 [PubMed]

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Model Information (Click on a link to find other models with that property)

Model Type:
Brain Region(s)/Organism:
Cell Type(s):	CA1 pyramidal neuron; CA3 pyramidal neuron; Neocortical pyramidal neuron: deep; Cerebellar purkinje cell;
Channel(s):	I Na,t; I L high threshold; I p,q; I K; I M; I K,Ca;
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment:	Neuron (web link to model);
Model Concept(s):	Action Potential Initiation; Bursting; Active Dendrites; Influence of Dendritic Geometry; Detailed Neuronal Models; Axonal Action Potentials; Action Potentials;
Implementer(s):	Hausser, M [M.Hausser at ucl.ac.uk];

Search NeuronDB for information about: CA1 pyramidal neuron; CA3 pyramidal neuron; Neocortical pyramidal neuron: deep; Cerebellar purkinje cell; I Na,t; I L high threshold; I p,q; I K; I M; I K,Ca;

Model files (located externally to ModelDB) Help downloading and running models

May 17th, 2002

Installation note:
Except for this note the below is the dendritica link from the www.dendrite.org web site. Michael Hines has found that dendritica works at least in its interactive mode with the most recent unix (and linux) version (5.2) of Neuron by

1)installing iv as described at the neuron installation page
2)after unpacking the nrn source code change the line
#if !defined(WORDS_BIGENDIAN)
to
#if defined(WORDS_BIGENDIAN)
in ./nrn-5.2/src/ivoc/ivocvect.cpp
3)finish the installation of neuron as usual.

Also note that dendritica "2. Getting Started" instructions in "2.1 A sample session" has the following changes for Neuron 5.2. After nrnivmodl is run in

./dendritica-1.0/batch_back/back/mod/kvz_naz

the folder (e.g. sparc/ or i686/ i.e. named after your machine) created by nrnivmodl, with all its contents and subdirectories, should be moved up to the back/ directory. Then to start Neuron and dendritica cd to the back/ directory and type

nrngui gui.hoc

(a minus sign on the end of the command is not needed).

Software tools for studying dendritic signalling Dendritica Software tools for studying dendritic signalling This page provides links to Dendritica, a package of software tools for studying propagation of action potentials in dendrites, to be used in conjunction with the simulator NEURON. The programs are based on those used for the simulations described in the following paper:

Vetter, P., Roth, A. & Häusser, M. (2001). Action potential propagation in dendrites depends on dendritic morphology. Journal of Neurophysiology, 85: 926-937.

Dendritica is available as a complete package which will enable you to interactively reproduce the simulations in the paper. The programs have been written for the Linux or Unix environments, and require NEURON 4.1.1. You will need approximately 100 MB of disk space for the entire installation. Note that to run all the programs successfully, you may also need to make several minor modifications to the NEURON source code (see documentation below).

Please note that these programs are still under development. We welcome your feedback.

Download the entire package (36.5 MB .tar.gz file) or browse through its directories to view and download individual programs.

Documentation about Dendritica can be found here:

HTML format

pdf file

Word file

Philipp Vetter, Arnd Roth, Michael Häusser

Last updated Saturday, Feb 10, 2001

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