Class: ConnectivityDetails¶

Payload for an analysis of a relationship between regions, whether that relationship is estimated from a signal or across subjects. Signal-based connectivity is the common case; structural covariance -- correlating cortical thickness or volume between a seed region and every other, across participants rather than within one -- shares the same shape of answer, so it takes this payload with structural_covariance as its method.

Nothing here carries direction. The sign of the connectivity parameter, and whether the experimental effect raised or lowered it, are what the analysis tested, so they are Effect.cells like the direction of any other result: a negative PPI is a negative cell on the term the coupling was estimated for, and coupling higher in one condition than another is that condition term crossed. A sign recorded here as well would be a second route to one fact, and the two can disagree -- a whole-map increased beside a pair of crossed cells says the map has one direction and two at once.

URI: neurostudy_ex:ConnectivityDetails

 classDiagram
    class ConnectivityDetails
    click ConnectivityDetails href "../ConnectivityDetails/"
      AnalysisDetails <|-- ConnectivityDetails
        click AnalysisDetails href "../AnalysisDetails/"

      ConnectivityDetails : connectivity_method





        ConnectivityDetails --> "1" ExtractedConnectivityMethod : connectivity_method
        click ExtractedConnectivityMethod href "../ExtractedConnectivityMethod/"



      ConnectivityDetails : details_type

      ConnectivityDetails : edges





        ConnectivityDetails --> "*" ConnectivityEdge : edges
        click ConnectivityEdge href "../ConnectivityEdge/"



      ConnectivityDetails : inference_target





        ConnectivityDetails --> "0..1" ExtractedInferenceTarget : inference_target
        click ExtractedInferenceTarget href "../ExtractedInferenceTarget/"



      ConnectivityDetails : modulatory_input





        ConnectivityDetails --> "0..1" ExtractedString : modulatory_input
        click ExtractedString href "../ExtractedString/"



      ConnectivityDetails : seed_regions





        ConnectivityDetails --> "*" Region : seed_regions
        click Region href "../Region/"



      ConnectivityDetails : target_regions





        ConnectivityDetails --> "*" Region : target_regions
        click Region href "../Region/"

Inheritance¶

AnalysisDetails
- ConnectivityDetails

Slots¶

Name	Cardinality and Range	Description	Inheritance
connectivity_method	1 ExtractedConnectivityMethod	Method used to estimate connectivity	direct
seed_regions	* Region	Seed or source regions, by identifier	direct
target_regions	* Region	Target regions, by identifier	direct
edges	* ConnectivityEdge	Named region pairs, when the source reports specific edges	direct
modulatory_input	0..1 ExtractedString	Modulatory input of the model, for DCM and related methods	direct
inference_target	0..1 ExtractedInferenceTarget	What the statistical test was about: the strength of a connection, which of s...	direct
details_type	1 String	The concrete details subclass carried by this payload	AnalysisDetails

Identifier and Mapping Information¶

Schema Source¶

from schema: https://neurostuff.org/schemas/neuroimaging-study-extraction

Mappings¶

Mapping Type	Mapped Value
self	neurostudy_ex:ConnectivityDetails
native	neurostudy_ex:ConnectivityDetails

LinkML Source¶

Direct¶

name: ConnectivityDetails
description: 'Payload for an analysis of a relationship between regions, whether that
  relationship is estimated from a signal or across subjects. Signal-based connectivity
  is the common case; structural covariance -- correlating cortical thickness or volume
  between a seed region and every other, across participants rather than within one
  -- shares the same shape of answer, so it takes this payload with `structural_covariance`
  as its method.

  Nothing here carries direction. The sign of the connectivity parameter, and whether
  the experimental effect raised or lowered it, are what the analysis tested, so they
  are `Effect.cells` like the direction of any other result: a negative PPI is a `negative`
  cell on the term the coupling was estimated for, and coupling higher in one condition
  than another is that condition term crossed. A sign recorded here as well would
  be a second route to one fact, and the two can disagree -- a whole-map `increased`
  beside a pair of crossed cells says the map has one direction and two at once.'
from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction
rank: 1000
is_a: AnalysisDetails
attributes:
  connectivity_method:
    name: connectivity_method
    description: Method used to estimate connectivity.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    domain_of:
    - ConnectivityDetails
    range: ExtractedConnectivityMethod
    required: true
  seed_regions:
    name: seed_regions
    description: Seed or source regions, by identifier. What each one is and how it
      was delimited is on the `Region`; naming it here says only that this analysis
      seeded from it.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    domain_of:
    - ConnectivityDetails
    range: Region
    multivalued: true
    inlined: false
  target_regions:
    name: target_regions
    description: Target regions, by identifier. Empty for a seed-to-whole-brain analysis.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    domain_of:
    - ConnectivityDetails
    range: Region
    multivalued: true
    inlined: false
  edges:
    name: edges
    description: Named region pairs, when the source reports specific edges.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    domain_of:
    - ConnectivityDetails
    range: ConnectivityEdge
    multivalued: true
    inlined_as_list: true
  modulatory_input:
    name: modulatory_input
    description: Modulatory input of the model, for DCM and related methods.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    domain_of:
    - ConnectivityDetails
    range: ExtractedString
  inference_target:
    name: inference_target
    description: 'What the statistical test was about: the strength of a connection,
      which of several models fits better, or a network taken as a whole. A model
      comparison and a parameter test answer different questions and are not poolable.'
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    domain_of:
    - ConnectivityDetails
    range: ExtractedInferenceTarget

Induced¶

name: ConnectivityDetails
description: 'Payload for an analysis of a relationship between regions, whether that
  relationship is estimated from a signal or across subjects. Signal-based connectivity
  is the common case; structural covariance -- correlating cortical thickness or volume
  between a seed region and every other, across participants rather than within one
  -- shares the same shape of answer, so it takes this payload with `structural_covariance`
  as its method.

  Nothing here carries direction. The sign of the connectivity parameter, and whether
  the experimental effect raised or lowered it, are what the analysis tested, so they
  are `Effect.cells` like the direction of any other result: a negative PPI is a `negative`
  cell on the term the coupling was estimated for, and coupling higher in one condition
  than another is that condition term crossed. A sign recorded here as well would
  be a second route to one fact, and the two can disagree -- a whole-map `increased`
  beside a pair of crossed cells says the map has one direction and two at once.'
from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction
rank: 1000
is_a: AnalysisDetails
attributes:
  connectivity_method:
    name: connectivity_method
    description: Method used to estimate connectivity.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    owner: ConnectivityDetails
    domain_of:
    - ConnectivityDetails
    range: ExtractedConnectivityMethod
    required: true
  seed_regions:
    name: seed_regions
    description: Seed or source regions, by identifier. What each one is and how it
      was delimited is on the `Region`; naming it here says only that this analysis
      seeded from it.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    owner: ConnectivityDetails
    domain_of:
    - ConnectivityDetails
    range: Region
    multivalued: true
    inlined: false
  target_regions:
    name: target_regions
    description: Target regions, by identifier. Empty for a seed-to-whole-brain analysis.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    owner: ConnectivityDetails
    domain_of:
    - ConnectivityDetails
    range: Region
    multivalued: true
    inlined: false
  edges:
    name: edges
    description: Named region pairs, when the source reports specific edges.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    owner: ConnectivityDetails
    domain_of:
    - ConnectivityDetails
    range: ConnectivityEdge
    multivalued: true
    inlined: true
    inlined_as_list: true
  modulatory_input:
    name: modulatory_input
    description: Modulatory input of the model, for DCM and related methods.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    owner: ConnectivityDetails
    domain_of:
    - ConnectivityDetails
    range: ExtractedString
  inference_target:
    name: inference_target
    description: 'What the statistical test was about: the strength of a connection,
      which of several models fits better, or a network taken as a whole. A model
      comparison and a parameter test answer different questions and are not poolable.'
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    owner: ConnectivityDetails
    domain_of:
    - ConnectivityDetails
    range: ExtractedInferenceTarget
  details_type:
    name: details_type
    description: The concrete details subclass carried by this payload. Populated
      from the class itself, not extracted.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/analysis_details
    rank: 1000
    designates_type: true
    owner: ConnectivityDetails
    domain_of:
    - AnalysisDetails
    range: string
    required: true