Class: Node

A node in a network with its own dynamics and properties

URI: tvbo:Node

 classDiagram
    class Node
    click Node href "./Node.html"
      Node : description
        
          
    
        
        
        Node --> "0..1" String : description
        click String href "../http://www.w3.org/2001/XMLSchema#string.html"
    

        
      Node : dynamics
        
          
    
        
        
        Node --> "0..1" Dynamics : dynamics
        click Dynamics href "./Dynamics.html"
    

        
      Node : events
        
          
    
        
        
        Node --> "*" Event : events
        click Event href "./Event.html"
    

        
      Node : id
        
          
    
        
        
        Node --> "1" Integer : id
        click Integer href "../http://www.w3.org/2001/XMLSchema#integer.html"
    

        
      Node : label
        
          
    
        
        
        Node --> "0..1" String : label
        click String href "../http://www.w3.org/2001/XMLSchema#string.html"
    

        
      Node : parameters
        
          
    
        
        
        Node --> "*" Parameter : parameters
        click Parameter href "./Parameter.html"
    

        
      Node : position
        
          
    
        
        
        Node --> "0..1" Coordinate : position
        click Coordinate href "./Coordinate.html"
    

        
      Node : record
        
          
    
        
        
        Node --> "0..1" Boolean : record
        click Boolean href "../http://www.w3.org/2001/XMLSchema#boolean.html"
    

        
      Node : region
        
          
    
        
        
        Node --> "0..1" String : region
        click String href "../http://www.w3.org/2001/XMLSchema#string.html"
    

        
      Node : state
        
          
    
        
        
        Node --> "*" StateValue : state
        click StateValue href "./StateValue.html"
    

        
      Node : subnetwork
        
          
    
        
        
        Node --> "0..1" Network : subnetwork
        click Network href "./Network.html"

Class Properties

Property Value
Class URI tvbo:Node

Slots

Name Cardinality and Range Description Inheritance
label 0..1
xsd:string		 direct
description 0..1
xsd:string		 direct
parameters *
Parameter		 direct
record 0..1
xsd:boolean		 Whether to include this element in simulation output files direct
id 1
xsd:integer		 Unique node identifier direct
dynamics 0..1
Dynamics		 Dynamics model governing this node’s behavior direct
position 0..1
Coordinate		 Spatial coordinates (x, y, z) of the node direct
region 0..1
xsd:string		 Brain region or anatomical label direct
state *
StateValue		 Per-node initial state variable values, keyed by state variable name direct
events *
Event		 Events attached to this node (e direct
subnetwork 0..1
Network		 Optional finer-scale Network that “lives inside” this Node (network-of-networ… direct

Usages

used by used in type used
Network nodes range Node
Network node_template range Node

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/tvbo

Mappings

Mapping Type Mapped Value
self tvbo:Node
native tvbo:Node

LinkML Source

Direct

name: Node
description: A node in a network with its own dynamics and properties
from_schema: https://w3id.org/tvbo
slots:
- label
- description
- parameters
- record
slot_usage:
  record:
    name: record
    ifabsent: 'True'
attributes:
  id:
    name: id
    description: Unique node identifier
    from_schema: https://w3id.org/tvbo
    rank: 1000
    slot_uri: dcterms:identifier
    domain_of:
    - Node
    - SimulationExperiment
    range: integer
    required: true
  dynamics:
    name: dynamics
    description: Dynamics model governing this node's behavior. Can be a reference
      (by name) or inline definition. If not provided, uses experiment's dynamics.
    from_schema: https://w3id.org/tvbo
    domain_of:
    - Network
    - Node
    - Edge
    - Continuation
    - SimulationExperiment
    range: Dynamics
    required: false
    inlined: false
  position:
    name: position
    description: Spatial coordinates (x, y, z) of the node
    from_schema: https://w3id.org/tvbo
    rank: 1000
    domain_of:
    - Node
    range: Coordinate
    inlined: true
  region:
    name: region
    description: Brain region or anatomical label
    from_schema: https://w3id.org/tvbo
    rank: 1000
    domain_of:
    - Node
    - SpatialDomain
    range: string
  state:
    name: state
    description: Per-node initial state variable values, keyed by state variable name.
    from_schema: https://w3id.org/tvbo
    rank: 1000
    domain_of:
    - Node
    range: StateValue
    multivalued: true
    inlined: true
  events:
    name: events
    description: Events attached to this node (e.g., threshold-based state changes).
    from_schema: https://w3id.org/tvbo
    rank: 1000
    domain_of:
    - Node
    - Edge
    - Dynamics
    - SimulationExperiment
    range: Event
    multivalued: true
    inlined: true
  subnetwork:
    name: subnetwork
    description: 'Optional finer-scale Network that "lives inside" this Node (network-of-networks
      / multi-scale primitive). The subnetwork''s nodes map (one-to-many) to this
      single parent Node. Cross-scale signal flow is declared as ordinary Edges in
      the subnetwork''s `edges` list, using `source_network` / `target_network` with
      the `parent` sentinel to traverse up the hierarchy. The subnetwork may carry
      its own `graph_generator` (discrete sub-network — reservoir, spiking population,
      jaxley compartments) and/or `mesh` (continuous surface field) — one unified
      slot for reservoirs-per-region, spiking-populations-per-region, cells-per-region,
      and surface-mesh-patches-per-region. Recursive: a subnetwork''s Nodes can themselves
      carry subnetworks.'
    from_schema: https://w3id.org/tvbo
    rank: 1000
    domain_of:
    - Node
    range: Network
    required: false
    inlined: true
class_uri: tvbo:Node

Induced

name: Node
description: A node in a network with its own dynamics and properties
from_schema: https://w3id.org/tvbo
slot_usage:
  record:
    name: record
    ifabsent: 'True'
attributes:
  id:
    name: id
    description: Unique node identifier
    from_schema: https://w3id.org/tvbo
    rank: 1000
    slot_uri: dcterms:identifier
    owner: Node
    domain_of:
    - Node
    - SimulationExperiment
    range: integer
    required: true
  dynamics:
    name: dynamics
    description: Dynamics model governing this node's behavior. Can be a reference
      (by name) or inline definition. If not provided, uses experiment's dynamics.
    from_schema: https://w3id.org/tvbo
    owner: Node
    domain_of:
    - Network
    - Node
    - Edge
    - Continuation
    - SimulationExperiment
    range: Dynamics
    required: false
    inlined: false
  position:
    name: position
    description: Spatial coordinates (x, y, z) of the node
    from_schema: https://w3id.org/tvbo
    rank: 1000
    owner: Node
    domain_of:
    - Node
    range: Coordinate
    inlined: true
  region:
    name: region
    description: Brain region or anatomical label
    from_schema: https://w3id.org/tvbo
    rank: 1000
    owner: Node
    domain_of:
    - Node
    - SpatialDomain
    range: string
  state:
    name: state
    description: Per-node initial state variable values, keyed by state variable name.
    from_schema: https://w3id.org/tvbo
    rank: 1000
    owner: Node
    domain_of:
    - Node
    range: StateValue
    multivalued: true
    inlined: true
  events:
    name: events
    description: Events attached to this node (e.g., threshold-based state changes).
    from_schema: https://w3id.org/tvbo
    rank: 1000
    owner: Node
    domain_of:
    - Node
    - Edge
    - Dynamics
    - SimulationExperiment
    range: Event
    multivalued: true
    inlined: true
  subnetwork:
    name: subnetwork
    description: 'Optional finer-scale Network that "lives inside" this Node (network-of-networks
      / multi-scale primitive). The subnetwork''s nodes map (one-to-many) to this
      single parent Node. Cross-scale signal flow is declared as ordinary Edges in
      the subnetwork''s `edges` list, using `source_network` / `target_network` with
      the `parent` sentinel to traverse up the hierarchy. The subnetwork may carry
      its own `graph_generator` (discrete sub-network — reservoir, spiking population,
      jaxley compartments) and/or `mesh` (continuous surface field) — one unified
      slot for reservoirs-per-region, spiking-populations-per-region, cells-per-region,
      and surface-mesh-patches-per-region. Recursive: a subnetwork''s Nodes can themselves
      carry subnetworks.'
    from_schema: https://w3id.org/tvbo
    rank: 1000
    owner: Node
    domain_of:
    - Node
    range: Network
    required: false
    inlined: true
  label:
    name: label
    from_schema: https://w3id.org/tvbo
    rank: 1000
    slot_uri: rdfs:label
    owner: Node
    domain_of:
    - ParcellationTerminology
    - Subject
    - Session
    - Dataset
    - Contact
    - SoftwareEnvironment
    - Equation
    - Stimulus
    - Event
    - Parcellation
    - Tractogram
    - Matrix
    - Phenotype
    - Network
    - Node
    - Edge
    - Observation
    - Dynamics
    - StateVariable
    - Parameter
    - Function
    - FunctionCall
    - DerivedVariable
    - RandomStream
    - DataSource
    - OptimizationStage
    - Exploration
    - ExplorationAxis
    - FreeParameter
    - Inference
    - AlgorithmStage
    - TuningObjective
    - Continuation
    - Coupling
    - RegionMapping
    - SimulationExperiment
    - SimulationStudy
    - TimeSeries
    - NDArray
    - SpatialDomain
    - Mesh
    - SpatialField
    - FieldStateVariable
    - DifferentialOperator
    - BoundaryCondition
    - PDESolver
    - PDE
    range: string
  description:
    name: description
    from_schema: https://w3id.org/tvbo
    rank: 1000
    slot_uri: dcterms:description
    owner: Node
    domain_of:
    - Dataset
    - ClinicalScore
    - SoftwarePackage
    - SoftwareRequirement
    - SoftwareEnvironment
    - Equation
    - Stimulus
    - Event
    - Tractogram
    - Matrix
    - Phenotype
    - MeasureSpec
    - NamedArray
    - Network
    - GraphGenerator
    - ProcedureStep
    - File
    - Node
    - Edge
    - Observation
    - Dynamics
    - StateVariable
    - Parameter
    - CouplingInput
    - Argument
    - Function
    - FunctionCall
    - Callable
    - DerivedParameter
    - DerivedVariable
    - RandomStream
    - DataSource
    - OptimizationStage
    - Exploration
    - ExplorationAxis
    - FreeParameter
    - Inference
    - Prior
    - Likelihood
    - UpdateRule
    - AlgorithmStage
    - TuningObjective
    - Algorithm
    - BranchSwitch
    - Continuation
    - Integrator
    - Coupling
    - RegionMapping
    - SimulationExperiment
    - Study
    - TimeSeries
    - NDArray
    - SpatialDomain
    - Mesh
    - SpatialField
    - FieldStateVariable
    - BoundaryCondition
    - PDESolver
    - PDE
    range: string
  parameters:
    name: parameters
    from_schema: https://w3id.org/tvbo
    rank: 1000
    owner: Node
    domain_of:
    - Equation
    - Stimulus
    - Event
    - TemporalApplicableEquation
    - Network
    - GraphGenerator
    - Node
    - Edge
    - Observation
    - Analysis
    - Dynamics
    - Distribution
    - Noise
    - Exploration
    - Discretization
    - BranchSwitch
    - Integrator
    - Coupling
    - PDE
    range: Parameter
    multivalued: true
    inlined: true
  record:
    name: record
    description: Whether to include this element in simulation output files. Applicable
      to state variables (default true), derived variables (default false), and network
      nodes (default true). Set false to suppress recording.
    from_schema: https://w3id.org/tvbo
    rank: 1000
    ifabsent: 'True'
    owner: Node
    domain_of:
    - Node
    - StateVariable
    - DerivedVariable
    - Exploration
    range: boolean
class_uri: tvbo:Node