biopsykit.protocols.car module

Module representing the Cortisol Awakening Response (CAR) protocol.

class biopsykit.protocols.car.CAR(name=None, **kwargs)[source]

Bases: biopsykit.protocols.base.BaseProtocol

Class representing psychological protocols for assessing the cortisol awakening response (CAR).

Parameters

  • name (str, optional) – name of CAR study or None to use default name (“CAR”). Default: None

  • **kwargs –

    additional parameters to be passed to CAR and its superclass, BaseProtocol, such as:

car_plot_params

Plot parameters to style car_saliva_plot().

car_saliva_plot(saliva_type='cortisol', **kwargs)[source]

Plot CAR saliva data as lineplot.

Parameters

  • saliva_type (str, optional) – type of saliva data to plot. Default: cortisol

  • **kwargs (optional arguments to be passed to lineplot()) –

Returns

  • fig (Figure) – figure object

  • ax (Axes) – axes object

Return type

Tuple[matplotlib.figure.Figure, matplotlib.axes._axes.Axes]

See also

lineplot()

draw line plot with error bars

name: str

Study or protocol name

structure: Dict[str, Any]

Structure of protocol, i.e., whether protocol is divided into different parts, phases, or subphases.

If protocol is not divided into different parts protocol_structure is set to None.

saliva_types: Sequence[str]

List of saliva data types present in the study.

test_times: Sequence[int]

Start and end time of psychological test (in minutes).

If no psychological test was performed in the protocol test_times is set to [0, 0].

sample_times: Dict[str, Sequence[int]]

Dictionary with sample times of saliva samples (in minutes).

Sample times are either provided explicitly using the sample_times parameter in add_saliva_data() or by extracting it from the saliva data (if a time column is present).

saliva_data: Dict[str, SalivaRawDataFrame]

Dictionary with saliva data collected during the study.

Data in SalivaRawDataFrame format can be added using add_saliva_data().

hr_data: Dict[str, HeartRateSubjectDataDict]

Dictionary with heart rate data collected during the study. If the study consists of multiple study parts each part has its own HeartRateSubjectDataDict. If the study has no individual study parts (only different phases), the name of the one and only study part defaults to Study (to ensure consistent dictionary structure).

Data in HeartRateSubjectDataDict format can be added using add_hr_data().

rpeak_data: Dict[str, SubjectDataDict]

Dictionary with R peak data collected during the study. If the study consists of multiple study parts each part has its own SubjectDataDict. If the study has no individual study parts (only different phases), the name of the one and only study part defaults to Study (to ensure consistent dictionary structure).

Data in SubjectDataDict format can be added using add_hr_data().

hr_results: Dict[str, pd.DataFrame]

Dictionary with heart rate results.

Dict keys are the identifiers that are specified when computing results from hr_data using compute_hr_results().

hr_above_baseline_results: Dict[str, pd.DataFrame]

Dictionary with heart rate above baseline results.

Dict keys are the identifiers that are specified when computing results from hr_data using compute_hr_above_baseline().

hrv_results: Dict[str, pd.DataFrame]

Dictionary with heart rate variability ensemble.

Dict keys are the identifiers that are specified when computing ensemble from rpeak_data using compute_hrv_results().

hrv_above_baseline_results: Dict[str, pd.DataFrame]

Dictionary with heart rate variability above baseline results.

Dict keys are the identifiers that are specified when computing results from rpeak_data using compute_hrv_above_baseline().

hr_ensemble: Dict[str, Dict[str, pd.DataFrame]]

Dictionary with merged heart rate data for heart rate ensemble plot.

Dict keys are the identifiers that are specified when computing ensemble HR data from hr_data using compute_hr_ensemble().

See also

hr_ensemble_plot()

heart rate ensemble plot

saliva_plot_params: Dict[str, Any]

Plot parameters for customizing the general saliva plot for a specific psychological protocol.

See also

saliva_plot()

saliva plot

hr_mean_plot_params: Dict[str, Any]

Plot parameters for customizing the general HR mean plot for a specific psychological protocol.

See also

hr_mean_plot()

HR mean plot

hr_ensemble_plot_params: Dict[str, Any]

Plot parameters for customizing the general HR ensemble plot for a specific psychological protocol.

See also

hr_ensemble_plot()

HR ensemble plot

biopsykit.protocols.base module biopsykit.protocols.cft module