Metadaten

Recommended Citation

Beeman D (2005). GENESIS Modeling Tutorial. In: Bower JM, Beeman D (eds): Special Issue on Realistic Neural Modeling - Wam-Bamm '05 Tutorials. Brains, Minds and Media, Vol. 1, bmm220. (urn:nbn:de:0009-3-2206)

BibTeX

@Article{Beeman:2005,
  author  = "David Beeman", 
  title   = "GENESIS Modeling Tutorial",
  journal = "Brains, Minds and Media",
  number  = "2",
  year    = "2005"
}

Full Metadata

Bibliographic Citation Brains, Minds and Media, Volume 1, Number 2 (2005-11-05)
Title GENESIS Modeling Tutorial (eng)
Author David Beeman
Language eng
Abstract This tutorial is intended to be a "quick start" to creating simulations with GENESIS. It should give you the tools and enough information to let you quickly begin creating cells and networks with GENESIS, making use of the provided example simulations. Advanced topics are covered by appropriate links to the Advanced Tutorials on Realistic Neural Modeling.
Subject computational neuroscience, realistic neural modeling, simulations, GENESIS, tutorial
Classified Subjects mesh: Neurosciences (D009488) mesh: Neurophysiology (D009482) mesh: Biological Models (D008954) mesh: Tutorial (D016444)
DDC 570
Rights DPPL
URN urn:nbn:de:0009-3-2206
DOI
Contents
show floating TOC
Introduction
GENESIS Scripting
Some preliminaries
Getting started with GENESIS programming
GENESIS Scripting Example
tutorial1.g
A Basic Tutorial on GENESIS - Constructing a Simple Compartment
Some Notation
Getting Started
Interpreter Basics
Basic Objects
Creating Elements
Examining Elements
Moving About in the Hierarchy
Modifying Elements
Running a Simulation
Adding Graphics
Linking Elements
Adding Buttons to a Form
Making realistic neural compartments
Tutorial2.g
Building a cell the easy way
SimpleCell.g
cell.p
Creating channel prototypes
protodefs.g
Creating the graphics
graphics.g
An exercise (highly recommended):
Another exercise
Making synaptic connections
Adding synapses and providing synaptic input
Building small networks and circuits
Creating large networks with GENESIS
The example simulation
Constructing the network
Some other things to try
What next?
Where do we go from here?
Using implicit numerical methods
Spike train objects in GENESIS
Using GENESIS on parallel computers
Other examples and GENESIS features
Appendix: Detours
Detour 1: Building a cell without the cell reader
Detour 2: Creating and modifying channel models
Detour 3: Making more realistic (cortical) cell models
Why bother?
Building the model
References
Used Hyperlinks
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