Map of the Topographica Site

• News
  • 4 Nov 2013: Reproducible paper with Lancet and IPython Notebook
  • 2 Oct 2013: New paper using Topographica
  • 2 May 2013: New web site
  • 23 Nov 2012: Version 0.9.8 released
  • 3 Oct 2012: Topographica development moved from SourceForge SVN to GitHub git.
  • 18 Jul 2012: New subprojects at GitHub
  • 18 July 2010: Version 0.9.7 released
  • 12 February 2009: Version 0.9.6 released
  • 05 September 2008: Version 0.9.5 released
  • 26 October 2007: Version 0.9.4 released
  • 23 April 2007: Version 0.9.3 released
  • 29 November 2006: Topographica talk at PyCon
  • 22 November 2006: Version 0.9.2 released
  • 02 November 2006: GCC 4.1.x problems reported
  • 23 July 2006: Version 0.9.1 released
  • 07 June 2006: Version 0.9.0 released
  • 15 May 2006: New book Computational Maps in the Visual Cortex available
  • 20 February 2006: Version 0.8.2 released
  • 22 December 2005: Version 0.8.1 released
  • 8 November 2005: New site launched with Topographica version 0.8.0
• Downloads
  • Installing Topographica
    • Quick start
    • Install a Python environment
    • Install via pip
    • Install via Git
  • Running Topographica
• Tutorials
  • Tutorials using the Tk GUI
  • IPython Notebooks
• User Manual
  • Introduction
    • Scope and modeling approach
    • Software architecture and implementation
    • References
  • Overview of Topographica design and features
    • Major Topographica object types
      • Parameterized objects and Parameters
      • Simulation and Events
      • Sheets
      • Connections and Projections
      • PatternGenerators
      • Transfer functions
      • Response functions
      • Learning functions
    • Who should use Topographica?
    • How much of Topographica to use
  • Representing time in Topographica
    • Clocked simulations
    • Event-driven simulations
    • Topographica simulations
  • ImaGen spatial coordinate systems
    • Sheet coordinates
    • Image coordinates
      • Technical details
  • Representing space in Topographica (coordinate systems)
    • Connection fields
    • Edge buffering
      • Technical details
  • Starting Topographica scripts interactively
    • Starting Topographica
    • Output path
    • User configuration file
    • Topographica Scripts
      • Imports
    • Startup options
  • The Topographica command line and script language
    • Recreating results from interactive sessions
      • Plotting from the command line
      • Saving or accessing Topographica bitmaps
      • Imports
    • Simplifying imports during interactive runs
      • Customizing the command prompt
      • Site-specific customizations
      • Debugging or verbose messaging
      • Controlling the GUI from scripts or the command line
  • Running Topographica simulations in batch mode
    • Lancet
  • Controlling simulation parameters
    • Basic usage
    • Inheritance and class Parameters
    • Inheritance examples
  • Generating patterns
    • Simple patterns
    • Composite patterns
    • Selector patterns
  • Plotting and visualization
    • Basic plots
    • Preference map plots
    • Receptive fields plots
    • Tuning curve plots
    • Changing existing plots
    • Adding a new plot
  • Graphical Model Editor
    • Opening the Model Editor
    • Viewing a Model
      • Representations
    • Creating a Model
      • Toolbar
      • The Work Area
      • The Predefined Components
      • Extending the Library
    • The Parameters
      • Changing constants and default values
      • Saving a new or modified model
  • Adding noise to Topographica
    • Additive and multiplicative noise in output_fns
    • Projection mapping jitter
    • ConnectionField shape noise
    • Weight adjustment noise
    • Spatially correlated noise
    • Measurement noise
  • Interfacing to external simulators
    • Interfacing to Perrinet retinal model in PyNN
    • Interfacing to other Python code (e.g., PyNEST, NEURON)
    • Interfacing to Matlab
    • Interfacing to C/C++
    • Notes
  • Publishing Topographica results
    • Image types: photos, bitmaps, and vector graphics
    • Printed versus displayed graphics (white versus black backgrounds)
    • Topographica plots
      • Model architecture
      • Preference Map plots
      • Color keys
      • Activity and ConnectionField plots
      • Projection plots
    • Citations
  • Using multiple cores with Topographica
    • Controlling OpenMP
• Developer Manual
  • Joining
• Forums
• Team Members
  • Previous contributors
• FAQ
  • Frequently Asked Questions about Topographica
• Links
• Papers using or about Topographica
  • Journal Articles
  • Book Chapters
  • Conference Papers
  • PhD Theses
  • MSc Theses