Alan Jović, Lea Suć, Nikola Bogunović

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Presentation transcript:

Feature extraction from electroencephalographic records using EEGFrame framework Alan Jović, Lea Suć, Nikola Bogunović Faculty of Electrical Engineering and Computing, University of Zagreb Department of Electronics, Microelectronics, Computer and Intelligent Systems

Contents Motivation EEGFrame overview EEG visualization Features Comparison to similar work Conclusion

Motivation Electroencephalogram (EEG) and magnetoencephalogram (MEG) Brain disorder (epilepsy, Alzheimer’s, schizophrenia, etc.) and state of consciousness (awake, dream, deep sleep) assessment methods Non-invasive measurements High temporal resolution

Motivation Biomedical time-series (EEG/MEG, ECG, EMG, heart rate, etc.) are inherently nonlinear, with periods of randomness and determinism EEG in particular shows high degree of complexity when functioning normally Complexity loss is pronounced in disorders such as epilepsy and Alzheimer’s Non-stationarities (atypical behavior) occur often without warning Noise often poses problems Biodiversity complicates general model construction

Motivation Which types of analyses? Functional connectivity 1 Complexity modelling 2 Disorder detection/classification 3 Disorder onset prediction 4 1 J. Sun, X. Hong, S. Tong, Phase Synchronization Analysis of EEG Signals: An Evaluation Based on Surrogate Tests, IEEE Trans Biomed Eng 59(8): 2254-2263, 2012. 2 R. Hornero, D. Abásolo, J. Escudero, C. Gómez, Nonlinear analysis of electroencephalogram and magnetoencephalogram recordings in patients with Alzheimer’s disease, Phil. Trans. R. Soc. A 367:314-336, 2009. 3 Y. Song, J. Zhang, Automatic recognition of epileptic EEG patterns via Extreme Learning Machine and multiresolution feature extraction, Expert Systems with Applications 40:5477-5489, 2013. 4 F. Mormann, C.E. Elger, K. Lehnertz, Seizure anticipation: from algorithms to clinical practice. Curr. Opin. Neurol. 19:187, 2006.

Motivation Complexity and variability of a time-series can be quantified using many approaches For comparing two or more time-series, additional methods are available

Motivation Very few open-source, freely available frameworks for EEG/MEG time-series modelling currently available Not many open-access EEG/MEG records databases available, e.g. PhysioNet Plethora of possibly applicable features Difficult repeatability and reliable comparison of scientific work in this domain

EEGFrame overview Signal viewer Signal selection EEG file in .edf format Record loading Feature selection Feature extraction Feature vector storing [Repeat if required] Output .csv file for knowledge discovery EEGFrame framework Knowledge discovery platform EEGFrame is a Java-based, open-source, freely available framework for feature extraction and EEG visualization EEG record -> feature extraction -> knowledge discovery

EEG visualization Visualization of the EEG record chb01_27.edf from PhysioNet CHB-MIT database for electrodes FP1-F7, P7-O1, C3-P3, and FP2-F4.

Implemented features Univariate methods, mostly derived from HRVFrame* Variability and complexity description methods Statistical, geometric, frequency, time-frequency, nonlinear features Adapted and tested for EEG analysis Bivariate and multivariate methods Aimed at multiple EEG trails analysis (e.g. mutual information, synchronization likelihood) The goal is to quantify both the intensity and direction of two or more time-series correspondence A topic of recent research * A. Jović, N. Bogunović, HRVFrame: Java-Based Framework for Feature Extraction from Cardiac Rhythm, Lecture Notes in Artificial Intelligence. 6747 (2011) ; 96-100.

Implemented features EEGFrame is divided into several packages Around 50 implemented features in total at the moment, most of them implemented in their own Java class The focus is on nonlinear features (more than 20 methods: entropy, phase-space, fractal, multivariate, other) The GUI supports selection of specific features and their parameters (if any) for feature vectors elicitation

Extracting features...

Comparison to similar work Software Purpose Implementation language Type Implemented features EEGLab [4] Extensive Matlab toolbox for EEG analysis: visualization, 3D brain modelling, feature extraction, several plugins (NFT, ERICA, BCILAB...) Matlab Embedded Time/frequency/time-frequency/independent component transformations and features / unknown total number of features BioSig [5] Reading and writing routines for many biomedical time-series data formats; EEG preprocessing, visualization, feature extraction (multivariate autoregressive modeling) and classification (via Matlab/Octave) C/C++, Matlab (or Octave) Some functions standalone, mostly embedded Time/frequency/time-frequency transformations and features, unknown total number of features PyEEG [6] Feature extraction framework, feature vector output for data mining Python Frequency/nonlinear features, currently 21 features in total EEGFrame Signal inspection, feature extraction framework, handles .EDF input, feature vector output for data mining Java Stand-alone or embedded Time/frequency/time-frequency/nonlinear features, currently 49 features in total

Conclusion Extensive framework with univariate and multivariate features implementations in Java Stand-alone framework, with possibility of embedding for research and commercial purposes Still in development, available at: http://www.zemris.fer.hr/~ajovic/eegframe/eegframe.html Additional features’ implementations are planned for the future (Hjorth parameters, SVD entropy, neural complexity CN, etc.)

Thank you!