[neurokit] Biosignal python tool

These day, i analyse biosignal like PPG and ECG.

So, i needed to use python package that handles them.

 

There are two famous tools

Package

- nuerokit

- heartpy

 

Neurokit

They support many biosignals. 

I usually use PPG, ECG.

 

PPG

 

PPG func. overview

This ppg func. docs is broken down into 3 part; Main, Preprocessing and Analysis.

 

Main 

- ppg_process()

- ppg_analyze()

- ppg_simulate() 

- ppg_plot()

 

Preprocessing

- ppg_clean()

- ppg_findpeaks()

 

Analysis

- ppg_eventrelated()

- ppg_intervalrelated()

 

Example

 

import neurokit2 as nk

# Example 1: Simulate data for event-related analysis
# generate virtual ppg by settings
ppg = nk.ppg_simulate(duration=20, sampling_rate=1000)

# Process data
ppg_signals, info = nk.ppg_process(ppg, sampling_rate=1000)

epochs = nk.epochs_create(ppg_signals, events=[5000, 10000, 15000],
                             epochs_start=-0.1, epochs_end=1.9)
    

# Analyze
analyze_epochs = nk.ppg_analyze(epochs, sampling_rate=1000)

analyze_epochs
Out: 
  Label  Event_Onset  ...  PPG_Rate_Trend_Quadratic  PPG_Rate_Trend_R2
1     1         5000  ...                 -0.655466           0.842748
2     2        10000  ...                 -4.537502           0.846765
3     3        15000  ...                  0.405473           0.954396




# Example 2: Download the resting-state data
data = nk.data("bio_resting_5min_100hz")

# Process the data
df, info = nk.ppg_process(data["PPG"], sampling_rate=100)

# Analyze
analyze_df = nk.ppg_analyze(df, sampling_rate=100)

analyze_df
Out
   PPG_Rate_Mean  HRV_MeanNN   HRV_SDNN  ...   HRV_HFD   HRV_KFD   HRV_LZC
0      86.401413  694.686775  49.380646  ...  1.834503  2.711044  0.852819

We can easily analyse ppg and other vital using this Neurokit package. 

Using other signals in Neurokit is similar to the above.

 

My project using this neurokit 

 

- Pain prediction using pre/post-op vital

https://github.com/epsilon-deltta/ppg2nrs

GitHub - epsilon-deltta/ppg2nrs: Pre&Post-op ppg > NRS (post-op, in PACU)

 

 

About me

https://github.com/epsilon-deltta

epsilon-deltta - Overview