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https://github.com/tensionhead/pyBOAT

A Biological Oscillations Analysis Toolkit
https://github.com/tensionhead/pyBOAT

Last synced: about 2 months ago
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A Biological Oscillations Analysis Toolkit

Host: GitHub
URL: https://github.com/tensionhead/pyBOAT
Owner: tensionhead
License: gpl-3.0
Created: 2019-08-01T11:10:21.000Z (about 5 years ago)
Default Branch: master
Last Pushed: 2023-10-15T10:09:23.000Z (11 months ago)
Last Synced: 2024-07-14T19:16:21.074Z (2 months ago)
Language: Python
Homepage:
Size: 36.7 MB
Stars: 17
Watchers: 2
Forks: 12
Open Issues: 2
Metadata Files:
- Readme: README.md
- Changelog: CHANGELOG.md
- License: LICENSE
- Citation: CITATION.cff

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README

        

# pyBOAT - A Biological Oscillations Analysis Toolkit ##

[![Join the chat at https://gitter.im/pyBOATbase/support](https://badges.gitter.im/pyBOATbase/support.svg)](https://gitter.im/pyBOATbase/support?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) 

[![PyPI version](https://badge.fury.io/py/pyboat.svg)](https://badge.fury.io/py/pyboat)

[![Conda Version](https://img.shields.io/conda/vn/conda-forge/pyboat.svg)](https://anaconda.org/conda-forge/pyboat)

[![Conda Downloads](https://img.shields.io/conda/dn/conda-forge/pyboat.svg)](https://anaconda.org/conda-forge/pyboat) 

Tools for time-frequency analysis of noisy time series. More details can be found in the

accompanying manuscript [Optimal time frequency analysis for biological data - pyBOAT](https://biorxiv.org/cgi/content/short/2020.04.29.067744v3). For help, questions or comments please join the official chat on [gitter](https://gitter.im/pyBOATbase/support), write [an issue](https://github.com/tensionhead/pyBOAT/issues) or [start a discussion](https://github.com/tensionhead/pyBOAT/discussions).

pyBOAT features a multi-layered graphical user interface. Here an example screenshot showing the `DataViewer`(left), where preprocessing of individual signals gets visualized, and the resulting `Wavelet Spectrum` with a ridge tracing the detected  main oscillatory component with a  $\sim$ 24h period (right):



### Features ###

* x-platform GUI

* Optimal sinc filter

* Fourier analysis

* Wavelet analysis 

* Ridge detection, phase and amplitude extraction

* Synthetic signal generator

* Ensemble statistics

See also the sister project [SpyBoat](https://github.com/tensionhead/spyBOAT) for spatially resolved time-frequency analysis with wavelets.

### Documentation

- [Installation and Updates](./doc/install.md)

- [Quick Start](./doc/guide.md)

For the public API see the [single signal demonstration](./scripting_demo.py) and the [ensemble statistics](./ensemble_demo.py) example. Consult the respective Python docstrings for further details.

### Quick install via conda

```conda install -c conda-forge pyboat```