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https://github.com/ambiqai/physiokit

A Python toolkit to process raw ambulatory bio-signals.

https://github.com/ambiqai/physiokit

Science Score: 26.0%

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    Low similarity (13.1%) to scientific vocabulary

Keywords

data-analytics physioloical python time-series
Last synced: 5 months ago · JSON representation

Repository

A Python toolkit to process raw ambulatory bio-signals.

Basic Info
Statistics
  • Stars: 7
  • Watchers: 2
  • Forks: 1
  • Open Issues: 0
  • Releases: 10
Topics
data-analytics physioloical python time-series
Created almost 3 years ago · Last pushed 9 months ago
Metadata Files
Readme License

README.md

PhysioKit

A Python toolkit to process raw ambulatory bio-signals.

Package version Supported Python versions Package downloads Package downloads License

🚧 PhysioKit is under active development

Documentation: https://ambiqai.github.io/physiokit

Source Code: https://github.com/AmbiqAI/physiokit

Key Features:

  • Handles a variety of physiological signals including ECG, PPG, RSP, and IMU.
  • Geared towards real-time, noisy wearable sensor data.
  • Provide advanced signal processing and feature extraction methods.
  • Create synthetic signals for testing and benchmarking.

Requirements

Installation

Installing PhysioKit can be done using uv or pip.

console pip install physiokit

console uv add physiokit

Example

In this example, we will generate a synthetic ECG signal, clean it, and compute heart rate and HRV metrics.

```python

import numpy as np import physiokit as pk

samplerate = 1000 # Hz heartrate = 64 # BPM signallength = 8*samplerate # 8 seconds

Generate synthetic ECG signal

ecg, segs, fids = pk.ecg.synthesize( signallength=signallength, samplerate=samplerate, heartrate=heartrate, leads=1 ) ecg = ecg.squeeze()

Clean ECG signal

ecgclean = pk.ecg.clean(ecg, samplerate=sample_rate)

Compute heart rate

hrbpm, _ = pk.ecg.computeheartrate(ecgclean, samplerate=samplerate)

Extract R-peaks and RR-intervals

peaks = pk.ecg.findpeaks(ecgclean, samplerate=samplerate) rri = pk.ecg.computerrintervals(peaks) mask = pk.ecg.filterrrintervals(rri, samplerate=samplerate)

Re-compute heart rate

hrbpm = 60 / (np.nanmean(rri[mask == 0]) / samplerate)

Compute HRV metrics

hrvtd = pk.hrv.computehrvtime(rri[mask == 0], samplerate=sample_rate)

bands = [(0.04, 0.15), (0.15, 0.4), (0.4, 0.5)] hrvfd = pk.hrv.computehrvfrequency( peaks[mask == 0], rri[mask == 0], bands=bands, samplerate=sample_rate )

```

License

This project is licensed under the terms of BSD 3-Clause.

Owner

  • Name: Ambiq AI
  • Login: AmbiqAI
  • Kind: organization
  • Email: carlos.morales@ambiq.com
  • Location: United States of America

Ludicrously ultra low power Endpoint AI.

GitHub Events

Total
  • Release event: 1
  • Issues event: 2
  • Watch event: 2
  • Delete event: 4
  • Issue comment event: 1
  • Push event: 4
  • Fork event: 1
Last Year
  • Release event: 1
  • Issues event: 2
  • Watch event: 2
  • Delete event: 4
  • Issue comment event: 1
  • Push event: 4
  • Fork event: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 1
  • Total pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Total issue authors: 1
  • Total pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 1
  • Pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
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Top Authors
Issue Authors
  • PaulCreaserML (1)
Pull Request Authors
  • apage224 (2)
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Packages

  • Total packages: 1
  • Total downloads:
    • pypi 211 last-month
  • Total dependent packages: 2
  • Total dependent repositories: 0
  • Total versions: 10
  • Total maintainers: 1
pypi.org: physiokit

PhysioKit, process raw ambulatory bio-signals.

  • Versions: 10
  • Dependent Packages: 2
  • Dependent Repositories: 0
  • Downloads: 211 Last month
Rankings
Dependent packages count: 7.5%
Average: 38.6%
Dependent repos count: 69.6%
Maintainers (1)
adamp-ambiq
Last synced: 6 months ago