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README.rst

WONAMBI

Package to analysis EEG, ECoG and other electrophysiology formats. It allows for visualization of the results and for a GUI that can be used to score sleep stages.

Features

  • Can read files of format:
    • Axon (.abf, ABF2 only)
    • BCI2000 (.dat)
    • Blackrock (.nev, .ns2, .ns3, .ns5)
    • Brain Vision (.vhdr, .vmrk, .eeg / .dat)
    • EEGLAB (.set, .set / .fdt)
    • European Data Format (.edf)
    • EGI MFF (.mff)
    • Fieldtrip (.mat)
    • mne FIFF (.fiff)
    • SystemPlus Micromed (.trc)
    • Moberg ("EEG,Composite,SampleSeries,Composite,MRIAmp,data")
    • openephys (.continuous, .openephys)
    • BIDS-formatted data file
  • Interface for Sleep Scoring
  • Computes frequency analysis (spectrogram), time-frequency analysis (short-time spectrogram, Morlet wavelet)
  • Detection of spindles and slow waves
  • Pure Python

Installation

Install wonambi by running:

pip3 install wonambi

See Installation for details

If you want to scroll recordings and do some sleep scoring (requires PyQt5)

wonambi

Run it!

From the command line, simply type:

wonambi

To open a dataset directly, add the full path to the file you want to open:

wonambi /home/me/sleep_recordings.edf

Documentation

See Documentation

Change Log

See Change Log

Requirements

  • Python 3.6 or later
  • numpy
  • scipy

Optional Requirements

  • PyQt5 (optional for sleep scoring GUI)
  • python-vlc (optional, to watch embedded movies)
  • vispy (optional to plot 3D brain surfaces and electrodes)
  • h5py (optional to read FieldTrip Matlab files)
  • mne (optional, to export to mne FIFF files)
  • nibabel (optional to read freesurfer)
  • tensorpac (optional to run phase-amplitude analysis, tensorpac version should be 0.5.6)
  • fooof 1.0 (optional to run parametrization of power spectra)

Status

https://travis-ci.com/wonambi-python/wonambi.svg?branch=master

License

The project is licensed under the GPLv3 license. Other licenses available upon request.

About

Package to analyze EEG, ECoG and other electrophysiology formats. It allows for visualization of the results and for a GUI that can be used to score sleep stages.

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