Course detail

Analysis and Interpretation of Biological Data

FEKT-LABDAcad. year: 2019/2020

The course is oriented to multirate signal processing, time-frequency analysis focused particularly on the different types of the wavelet transform, Stockwell transform, empirical mode decomposition (EMD) and Hilbert-Huang transform. The following are applications of time-frequency transforms. Signal envelope and instantaneous signal frequency estimates are provided. Below are the parametric methods for the power spectrum estimation and nonlinear methods of filtering. The conclusion is focused on the use of mobile phones for sensing and processing of the biosignals.

Learning outcomes of the course unit

The student is able to:
- implement the sampling rate conversion
- explain the principles and advantages of multirate filtering
- implement of the various types of wavelet transforms (CWT, DTWT)
- explain the principles of the parametric methods for power spectrum estimation
- explain the principle of the Stockwell transform and its relation to STFT and DTWT
- explain the principle of the EMD and Hilbert-Huang transform
- explain the importance and possibilities of using complex signals
- explain the principles of linear and nonlinear deconvolution

Prerequisites

Students should have knowledge of digital signal processing, be familiar with the ways of describing the linear filters (transfer function, impulse response, difference equations, frequency response). Assuming knowledge of the discrete Fourier transform (DFT) and the ability to interpret the result DFT. The laboratory work is expected knowledge of Matlab programming environment.

Co-requisites

Not applicable.

Recommended optional programme components

Not applicable.

Recommended or required reading

Kozumplík, J.: Multitaktní systémy. Elektronická skripta FEKT VUT v Brně, 2005 (CS)
Svatoš, J.: Biologické signály I. Geneze, zpracování a analýza. Skripta FEL ČVUT, Vydavatelství ČVUT, Praha, 1992 (CS)
Sornmo,L., Laguna,P.: Bioelectrical Signal Processing in Cardiac and Neurological Applications. Elsevier, 2005. (EN)
Kozumplík, J.: Analýza biologických signálů. Elektronická skripta FEKT VUT v Brně, Brno, 2013 (CS)

Planned learning activities and teaching methods

Teaching methods include lectures and computer laboratories. Course is taking advantage of e-learning system. Students have to write a single project/assignment during the course.

Assesment methods and criteria linked to learning outcomes

Requirements for completion of a course are elaborated by the lecturer responsible for the course every year;
basically:
- obtaining at least 12 points (out of 24 as course-unit credit based on active presence in demonstration exercises),
- successful passing of final written exam (up to 76 points)

Language of instruction

Czech

Work placements

Not applicable.

Course curriculum

1. Sampling rate conversion
2. Design of multirate filters
3. Time-frequency analysis, wavelet transforms (CTWT, DTWT)
4. Use of DTWT in compression and for filtering and analysis of biosignals
5. Adaptive filters
6. Spectral analysis of biosignals and parametric methods for power spectrum estimation
7. Stockwell transform (S-transform), theory and use
8. Empirical mode decomposition (EMD), principle and use
9. Complex signals, Hilbert transform, Hilbert-Huang transform
10. Signal envelope and instantaneous signal frequency, their estimates
11. Multiplicative modulation, SSB modulation
12. Linear deconvolution
13. Nonlinear filtering: median filtering and homomorphic filtering
14. Mobile phone applications

Aims

Gaining knowledge about multirate signal processing, the wavelet transforms for processing and analysis of biosignals. Use of wavelet transforms in compression and for filtering and analysis of biosignals. Principle and use of the Stockwell transform. Empirical mode decomposition (EMD), complex signals a Hilbert-Huang transform. Nonlinear methods of the filtering. Mobile phone applications for sensing and processing of the biosignals.

Specification of controlled education, way of implementation and compensation for absences

Delimitation of controlled teaching and its procedures are specified by a regulation issued by the lecturer responsible for the course and updated for every year (see Rozvrhové jednotky).
Basically:
- obligatory computer-lab tutorial
- voluntary lecture

Classification of course in study plans

  • Programme EEKR-ML1 Master's

    branch ML1-BEI , 1. year of study, winter semester, 5 credits, compulsory

  • Programme EEKR-CZV lifelong learning

    branch ET-CZV , 1. year of study, winter semester, 5 credits, compulsory

Type of course unit

 

Lecture

26 hours, optionally

Teacher / Lecturer

Exercise in computer lab

26 hours, compulsory

Teacher / Lecturer

eLearning