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Oximetry Toolbox, for extracting biomarkers from spo2 signal

Project description

PhysioZoo OBM documentation

Oximetry digital biomarkers for the analysis of continuous oximetry (SpO2) time series.

Based on the paper Jeremy Levy, Daniel ́Alvarez, Aviv A Rosenberg, Alexandra Alexandrovich, F ́elix Del Campo, and Joachim ABehar. Digital oximetry biomarkers for assessing respiratory function: standards of measurement, physiologicalinterpretation, and clinical use.NPJ digital medicine, 4(1):1–14, 2021

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Five types of biomarkers may be evaluated:

  1. General statistics: time-based statistics describing the oxygen saturation time series data distribution.

  2. Complexity: quantify the presence of long-range correlations in non-stationary time series.

  3. Periodicity: quantify consecutive events creating some periodicity in the oxygen saturation time series.

  4. Desaturations: time-based measures that are descriptive statistics of the desaturation patterns happening throughout the time series.

  5. Hypoxic burden: time-based measures quantifying the overall degree of hypoxemia imposed to the heart and other organs during the recording period.


Available on pip, with the command: pip install pobm

pip project:


numpy > 1.18.2

scikit-learn > 0.22.2

scipy > 1.4.1


All the requirements are installed when the toolbox is installed, no need for additional commands.


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