cmp.bidsappmanager.stages.connectome.connectome module

Definition of structural connectome config and stage UI classes.

class cmp.bidsappmanager.stages.connectome.connectome.ConnectomeConfigUI[source]

Bases: cmp.stages.connectome.connectome.ConnectomeConfig

Class that extends the ConnectomeConfig with graphical components.

output_types

A list of output_types. Valid output_types are ‘gPickle’, ‘mat’, ‘cff’, ‘graphml’

Type

list of string

connectivity_metrics

A list of connectivity metrics to stored. Valid connectivity_metrics are ‘Fiber number’, ‘Fiber length’, ‘Fiber density’, ‘Fiber proportion’, ‘Normalized fiber density’, ‘ADC’, ‘gFA’

Type

list of string

traits_view

TraitsUI view that displays the Attributes of this class

Type

traits.ui.View

See also

cmp.stages.connectome.connectome.ConnectomeConfig

class cmp.bidsappmanager.stages.connectome.connectome.ConnectomeStageUI(bids_dir, output_dir)[source]

Bases: cmp.stages.connectome.connectome.ConnectomeStage

Class that extends the ConnectomeStage with graphical components.

log_visualization

If True, display with a log transformation

Type

traits.Bool

circular_layout

If True, display the connectivity matrix using a circular layout

Type

traits.Bool

inspect_output_button

Button that displays the selected connectivity matrix in the graphical component for quality inspection

Type

traits.ui.Button

inspect_outputs_view

TraitsUI view that displays the quality inspection window of this stage

Type

traits.ui.View

config_view

TraitsUI view that displays the configuration window of this stage

Type

traits.ui.View

See also

cmp.stages.connectome.connectome.ConnectomeStage