bids.variables.entities¶
Classes
Node (level, entities) |
Base class for objects that represent a single object in the BIDS hierarchy. | ||
NodeIndex () |
Represents the top level in a BIDS hierarchy. | ||
RunInfo (entities, duration, tr, image) |
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RunNode (entities, image_file, duration, …) |
Represents a single Run in a BIDS project. |
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class
Node
(level, entities)[source]¶ Base class for objects that represent a single object in the BIDS hierarchy.
Parameters: id (int, str) – A value uniquely identifying this node. Typically the entity value extracted from the filename via layout. Methods
add_variable
(variable)Adds a BIDSVariable to the current Node’s list. -
add_variable
(variable)[source]¶ Adds a BIDSVariable to the current Node’s list.
Parameters: variable (BIDSVariable) – The Variable to add to the list.
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class
NodeIndex
[source]¶ Represents the top level in a BIDS hierarchy.
Methods
add_variable
(variable)Adds a BIDSVariable to the current Node’s list. get_collections
(unit[, names, merge, …])Retrieve variable data for a specified level in the Dataset. get_or_create_node
(level, entities, *args, …)Retrieves a child Node based on the specified criteria, creating a new Node if necessary. get_nodes -
add_variable
(variable)¶ Adds a BIDSVariable to the current Node’s list.
Parameters: variable (BIDSVariable) – The Variable to add to the list.
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get_collections
(unit, names=None, merge=False, sampling_rate=None, **entities)[source]¶ Retrieve variable data for a specified level in the Dataset.
Parameters: - unit (str) – The unit of analysis to return variables for. Must be one of ‘run’, ‘session’, ‘subject’, or ‘dataset’.
- names (list) – Optional list of variables names to return. If None, all available variables are returned.
- merge (bool) – If True, variables are merged across all observations of the current unit. E.g., if unit=’subject’ and return_type= ‘collection’, variablesfrom all subjects will be merged into a single collection. If False, each observation is handled separately, and the result is returned as a list.
- sampling_rate (int, str) – If unit=’run’, the sampling rate to pass onto the returned BIDSRunVariableCollection.
- entities – Optional constraints used to limit what gets returned.
Returns:
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get_or_create_node
(level, entities, *args, **kwargs)[source]¶ Retrieves a child Node based on the specified criteria, creating a new Node if necessary.
Parameters: - entities (dict) – Dictionary of entities specifying which Node to return.
- kwargs (args,) – Optional positional or named arguments to pass onto class-specific initializers. These arguments are only used if a Node that matches the passed entities doesn’t already exist, and a new one must be created.
Returns: A Node instance.
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class
RunInfo
(entities, duration, tr, image)¶ Attributes: Methods
count
($self, value, /)Return number of occurrences of value. index
($self, value[, start, stop])Return first index of value. -
count
($self, value, /)¶ Return number of occurrences of value.
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duration
¶ Alias for field number 1
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entities
¶ Alias for field number 0
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image
¶ Alias for field number 3
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index
($self, value, start=0, stop=sys.maxsize, /)¶ Return first index of value.
Raises ValueError if the value is not present.
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tr
¶ Alias for field number 2
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class
RunNode
(entities, image_file, duration, repetition_time)[source]¶ Represents a single Run in a BIDS project.
Parameters: - id (int) – The index of the run.
- entities (dict) – Dictionary of entities for this Node.
- image_file (str) – The full path to the corresponding nifti image.
- duration (float) – Duration of the run, in seconds.
- repetition_time (float) – TR for the run.
- task (str) – The task name for this run.
Methods
add_variable
(variable)Adds a BIDSVariable to the current Node’s list. get_info -
add_variable
(variable)¶ Adds a BIDSVariable to the current Node’s list.
Parameters: variable (BIDSVariable) – The Variable to add to the list.