Contents

• Contents
• List of Figures
• Presentation of XNBC
  • The XNBC components
  • The XNBC objects
    • The neuron
    • The cluster
    • The nucleus
    • The network
    • The connections or links
  • How to use XNBC
    • Choose the parameters of the neuron models,
    • Build a neural network
    • Prepare new drugs
    • Run the simulation
    • Visualize the simulation results
    • Analyze the simulated network behavior
  • History and implementation
  • Contributors
    • Project leader:
    • Developpers, in alphabetic order:
    • Neurobiologists, in alphabetic order:
  • DISCLAIMER
• The XNBC control panel
  • Pulldown menus
  • Programs launched by the control panel
  • Behavior of the control panel
  • Files
  • Diagnostics and problems
• The phenomenologic model graphic editor
  • The menu bar
  • The vertical scales
  • The horizontal scales
    • PostScript outputs
    • Saving neuron
  • Files
  • Known problems
• The conductance based model graphic editor
  • User interface
  • Currents
    • Current selection
    • Equations used
    • Currents parameters
    • NMDA current
    • Initial values
  • Simulation parameters
    • Manual versus automatic update
    • Simulation times
    • Integration methods
  • Experiment type
    • Voltage clamp
    • Stimulation control
    • EPSP and IPSP
    • Recurrent PSPs on the simulated neuron
    • Hybrid simulations
    • Background noise
    • Drugs
  • Visualizations
    • Temporal representations
    • Phase plane representations
    • Activation/inactivation versus voltage representations
  • Outputs
    • PostScript outputs
    • Saving time series
    • Saving neuron
  • Miscellaneous
    • Spike detection
    • Help
    • How to use the dials
    • How to use the input fields
  • Files
  • Known problems
• The simple network editor
  • Description of the user s interface
  • Description of a cluster
  • Description of a link
  • Description of the Cluster Parameters dialog box
  • Description of the Link Parameters dialog box
  • The steps to follow to create a simple network
  • User Interface Menu Functions.
  • Representation of objects
    • Cluster representation.
    • Cluster and Neuron Distinction.
    • Link representation.
  • Placement mode.
  • Files
  • Known problems
• The full featured network editor
  • New concepts bring by the full featured network editor
  • User interface of the full featured Network Editor.
  • Links between neurons and between nuclei
  • Network concept
  • Nucleus concept
  • Files
  • Known problems
• The drug editor
  • Menu bar
  • Files
  • Known problems
• The simulator
  • The leaky integrator model graphic editor
  • The conductance based model graphic editor.
  • Architecturing the modelled network
    • The simple editor
    • The full featured editor
    • Relationship between nuclei and neurons.
  • Loading the network
  • Running the simulation
  • External inputs
  • Stopping the simulation
  • Analysis tools
    • Visualizing the simulation result
    • Time series analysis
    • Cluster activity analysis
  • Help
  • Files
  • Known problems
• The visualization tool
  • Available representations
  • Description of the user's interface
    • Color Scale
    • Time Step
    • Visualization buttons
    • Informations fields
  • How to visualize data using the visualization tool
  • Quick selection and visualization of membrane potential of neurons
  • Files
  • Known problems
• The time series analysis tool
  • Data format
  • XTMS menus
    • Main menu
    • The xtms calcul functions
  • Changing the parameters
    • Windows.
  • Printing
  • Files
  • Known problems
• The network activity analysis tool
  • Data format
  • XCAA menus
  • Changing the parameters
    • Windows
    • Printing
  • Files
  • Known problems
• Installation of XNBC
  • Customization
  • Local Install (user mode)
  • Global Install (root mode)
  • User manual
  • Using XNBC
  • Example data set
• Files of XNBC
• PUM model equations
  • Equations
  • Default values
• LIM model equations
  • Equations
  • Default values
• BUM model equations
  • Equations
  • Default values
• CBM model equations
  • Equations
  • Default values
• References
  • Papers about XNBC or using XNBC
• Bibliography
  • References cited in the text