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Brain Scaffold Builder 5.1.0 documentation
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Getting Started

  • Installation
  • Getting Started
    • Top Level Guide
    • Your first network
    • Managing Scaffold files
    • Guides on Point-neuron simulations
      • Run your first NEST simulation
      • Analyze spike activity results
    • Guides on Multi-compartment neurons modeling
      • Adding morphologies
      • Run your first NEURON simulation
      • Analyze multi-compartment neuron results
    • Create your own components
  • Examples
    • How to label neurons
    • Display morphologies from a compiled network
    • Mouse brain atlas based placement
    • Distribution-based Placement Strategy

CLI

  • Command-Line Interface
    • Introduction
    • List of commands
    • Options

BSB core

  • BSB core
    • Scaffold
    • Configuration
      • Configuration files
        • JSON parser
      • Nodes
      • Configuration attributes
      • Configuration reference
    • Storage
    • Workflow parallelization

Components

  • List of Components
    • Topology
      • Introduction
      • Regions
      • Partitions
    • Cell Types
    • Morphology
      • Morphologies
      • Morphology parsers
      • Morphology repositories
      • MorphologySet
    • Placement
      • Placement
      • List of placement strategies
      • Placement Indications
      • Placement sets
    • Connectivity
      • Connectivity
      • Writing a component
      • List of strategies
      • Geometric shape connectivity strategies
      • Connectivity sets
    • Simulation
      • Simulating Networks
      • Simulate using NEST
      • Simulate using NEURON
      • Simulate using ARBOR
    • Writing components

References

  • bsb
    • bsb package
      • bsb.cli package
        • bsb.cli.commands package
      • bsb.config package
        • bsb.config.parsers package
      • bsb.topology package
      • bsb.morphologies package
        • bsb.morphologies.parsers package
      • bsb.placement package
      • bsb.connectivity package
        • bsb.connectivity.detailed package
        • bsb.connectivity.geometric package
      • bsb.simulation package
      • bsb.services package
      • bsb.storage package
  • Index
  • Module Index

FAQ

  • FAQ

Developer Guides:

  • Developer guides
    • Developer Guidelines
    • Developer Installation
    • Documentation
    • Services
    • Configuring your BSB Python Projects
    • Plugins
    • Configuration hooks
    • Developer modules
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BSB coreΒΆ

BSB core

  • Scaffold
    • Properties
    • Workflow methods
    • Get Stored data
  • Configuration
    • Configuration files
    • Nodes
    • Configuration attributes
    • Configuration reference
  • Storage
    • Storage engines
  • Workflow parallelization
    • Job parallelization
    • Running the BSB in parallel
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