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  • Introduction
    • Quick Example
    • Installation
    • Contributing
    • Documentation
      • General
      • Examples
    • Citation
    • Physiological Data Preprocessing
      • Simulate physiological signals
      • Electrodermal Activity (EDA/GSR)
      • Cardiac activity (ECG)
      • Respiration (RSP)
      • Electromyography (EMG)
      • Photoplethysmography (PPG/BVP)
      • Electrooculography (EOG)
      • Electrogastrography (EGG)
    • Physiological Data Analysis
      • Event-related
      • Interval-related
    • Miscellaneous
      • Heart Rate Variability (HRV)
      • ECG Delineation
      • Signal Processing
      • Complexity (Entropy, Fractal Dimensions, …)
      • Signal Decomposition
      • Signal Power Spectrum Density (PSD)
      • Statistics
    • Popularity
    • Notes
  • Authors
    • Core team
    • Contributors
  • Installation
    • 1. Python
      • Windows
        • Winpython
        • Miniconda or Anaconda
      • Mac OS
    • 2. NeuroKit
  • Get Started
    • Get familiar with Python in 10 minutes
      • Setup
      • Variables
      • Variables and data types
      • Lists and dictionnaries
      • Basic indexing
      • Indexing starts from 0
      • Control flow (if and else)
      • For loops
      • Functions
      • Packages
      • Lists vs. vectors (arrays)
      • Conditional indexing
      • Dataframes
      • Reading data
      • Next steps
    • Where to start
  • Examples
    • Try the examples in your browser
    • 1. Analysis Paradigm
      • a) Event-related paradigm
      • b) Interval-related paradigm
    • 2. Biosignal Processing
      • a) Custom processing pipeline
    • 3. Heart rate and heart cycles
      • a) Detecting components of the cardiac cycle
      • b) Looking closer at heart beats
    • 4. Electrodermal activity
      • a) Extracting information in EDA
    • 5. Respiration rate and respiration cycles
      • a) Extracting Respiration Rate Variability metrics
    • 6. Muscle activity
    • Simulate Artificial Physiological Signals
      • Cardiac Activity (ECG)
      • Respiration (RSP)
      • Electromyography (EMG)
      • Electrodermal Activity (EDA)
    • Customize your Processing Pipeline
      • The Default NeuroKit processing pipeline
      • Building your own process() function
      • Changing the processing parameters
      • Customize even more!
    • Event-related Analysis
      • The Dataset
      • Find Events
      • Process the Signals
      • Create Epochs
      • Extract Event Related Features
      • Plot Event Related Features
      • Important remarks:
    • Interval-related Analysis
      • The Dataset
      • Process the Signals
      • Extract Features
      • Optional: Segmenting the Data
    • Analyze Electrodermal Activity (EDA)
      • Extract the cleaned EDA signal
      • Locate Skin Conductance Response (SCR) features
      • Decompose EDA into Phasic and Tonic components
      • Quick Plot
    • Analyze Respiratory Rate Variability (RRV)
      • Download Data and Extract Relevant Signals
      • Analyse RRV
        • See documentation for full reference
    • ECG-Derived Respiration (EDR) Analysis
      • Download ECG Data
      • Extraction of ECG Features
      • Analyse EDR
    • Extract and Visualize Individual Heartbeats
      • Extract the cleaned ECG signal
      • Extract R-peaks location
      • Segment the signal around the heart beats
      • Advanced Plotting
        • Custom colors and legend
        • Interactivity
    • How to create epochs
      • One signal with multiple event markings
      • One subject with multiple data files
    • Complexity Analysis of Physiological Signals
      • Basic Concepts
        • Definitions
        • Time-delay embedding
        • Embedding Parameters
      • Entropy as measures of Complexity
        • Shannon Entropy (ShEn)
        • Approximate Entropy (ApEn)
        • Sample Entropy (SampEn)
        • Fuzzy Entropy (FuzzyEn)
        • Multiscale Entropy (MSE)
      • Detrended Fluctuation Analysis (DFA)
    • Analyze Electrooculography EOG data (eye blinks, saccades, etc.)
      • Explore the EOG signal
      • Clean the signal
      • Detect and visualize eye blinks
    • Fit a function to a signal
      • Fit a linear function
      • Non-linear curves
  • Resources
    • Recording good quality signals
      • Recording
      • Signal quality
      • Artifacts and Anomalies
    • What software for physiological signal processing
      • Software vs. programming language (packages)
      • GUI vs. code
      • Matlab vs. Python vs. R vs. Julia
    • Additional Resources
      • General Neuroimaging
      • ECG
      • EDA
      • EEG
  • Functions
    • ECG
    • PPG
    • HRV
    • RSP
    • EDA
    • EMG
    • EEG
    • Signal Processing
    • Events
    • Data
    • Epochs
    • Statistics
    • Complexity
    • Miscellaneous
  • Benchmarks
    • Benchmarking of ECG Preprocessing Methods
      • Introduction
      • Databases
        • Glasgow University Database
        • MIT-BIH Arrhythmia Database
        • MIT-BIH Normal Sinus Rhythm Database
        • Concanate them together
      • Study 1: Comparing Different R-Peaks Detection Algorithms
        • Procedure
        • Results
        • Conclusion
      • Study 2: Normalization
        • Procedure
        • Results
        • Conclusion
    • References
  • Datasets
    • ECG (1000 hz)
    • ECG - pandas (3000 hz)
    • Event-related (4 events)
    • Resting state (5 min)
    • Resting state (8 min)
  • Contributing
    • Understanding NeuroKit
      • 1. readthedocs
        • Example
      • 2. The code on Github
        • Example
      • 3. The code on YOUR machine
        • Python directory
        • Windows
        • Mac
        • Example
    • Contributing guide
      • NeuroKit’s style
        • Structure and code
        • Run code checks
        • Avoid Semantic Errors
        • Development workflow
      • How to use GitHub to contribute
        • Step 1: Fork it
        • Step 2: Clone it
        • Step 3: Find it and fix it
        • Step 4: Commit it and push it
        • Step 4: Create pull request
        • Step 5: Let’s do it
      • Useful reads
      • What’s next?
    • Ideas for first contributions
      • Look for “good first contribution” issues
      • Improving documentation
      • Adding tests
      • Adding examples and tutorials
        • How to write
        • Where to add the files
NeuroKit
  • Docs »
  • Examples
  • Edit on GitHub

Examples¶

The notebooks in this repo are meant to illustrate what you can do with NeuroKit. It is supposed to reveal how easy it has become to use cutting-edge methods, and still retain the liberty to change a myriad of parameters. These notebooks are organized in different sections that correspond to NeuroKit’s modules.

  • Try the examples in your browser
  • 1. Analysis Paradigm
  • 2. Biosignal Processing
  • 3. Heart rate and heart cycles
  • 4. Electrodermal activity
  • 5. Respiration rate and respiration cycles
  • 6. Muscle activity
  • Simulate Artificial Physiological Signals
  • Customize your Processing Pipeline
  • Event-related Analysis
  • Interval-related Analysis
  • Analyze Electrodermal Activity (EDA)
  • Analyze Respiratory Rate Variability (RRV)
  • ECG-Derived Respiration (EDR) Analysis
  • Extract and Visualize Individual Heartbeats
  • How to create epochs
  • Complexity Analysis of Physiological Signals
  • Analyze Electrooculography EOG data (eye blinks, saccades, etc.)
  • Fit a function to a signal
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© Copyright 2020, Dominique Makowski Revision a90f157b.