Biomedical Instrumentation B2. Dealing with noise

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1 Biomedical Instrumentation B2. Dealing with noise B18/BME2 Dr Gari Clifford

2 Noise & artifact in biomedical signals Ambient / power line interference: 50 ±0.2 Hz mains noise (or 60 Hz in many data sets) with an amplitude of up to 50% of full scale deflection (FSD), the peak-to-peak ECG amplitude. Also includes ambient light changes (for PPG) Sensor pop or contact noise: Loss of contact between the sensor and the skin manifesting as sharp changes with saturation at FSD for periods of around 1 s on the ECG (usually due to an electrode being nearly or completely pulled off); Patient sensor motion artifacts: Movement of the electrode away from the contact area on the skin, leading to variations in the impedance between the electrode and skin causing potential variations in the ECG and usually manifesting themselves as rapid (but continuous) baseline jumps or complete saturation for up to 0.5 second; Electromyographic (EMG) noise: Electrical activity due to muscle contractions lasting around 50 ms between dc and 10,000 Hz with an average amplitude of 10% FSD level; Baseline drift: E.g. respiratory motion with an amplitude of ~15% FSD at frequencies drifting between Hz; Hardware electronics noise: Artifacts generated by the signal processing hardware, such as signal saturation; Electrosurgical noise: Noise generated by other medical equipment present in the patient care environment a frequencies between 100 khz and 1 MHz, lasting for approximately 1 and 10 seconds; - may include defibrillation artifact too. Quantization noise: Steps introduced into data Clock drift & missing data: Sampling frequency is not constant always use a real-time OS Aliasing: Spurious frequencies because sampling frequency is too low or data were resampled Signal processing artifacts: (e.g., Gibbs oscillations, IIR filters, ). Other biological sources & sinks :(e.g., non-conductive tissues, fetal/maternal mixture, observer pulse).

3 Quantisation Noise Imagine a QRS complex The R-peak is always cut-off This leads to additional low and high frequency contributions to the signal

4 Quantisation Noise Signal to Noise Quantisation Ratio (Q = # bits) E.g. A 16-bit ADC has a maximum signalto-noise ratio of = 96.3 db. Assumes uniform distribution of signal If not, then reduce: E.g. If a sine wave, then multiply by 2 -½

5 Aliasing The corresponding behaviour in the time domain is obvious is we consider a sinusoid of frequency f m : f s < 2 f m f s < 2 f m f s = f m Hence we have to sample at least twice every period in order to disambiguate, and so f s > 2 f m, or equivalently ω s > 2 ω m

6 How fast should we sample the ECG? f s > 2 f m... So what is the highest frequency in the ECG? Think about the idealised ECG S-wave is ½ square = 0.02s = 50Hz

7 Signal Processing Artifacts Spectral leakage Windowing Harmonics Multiples of the fundamental frequency E.g....

8 DFT recap: Sampling Sample the time-signal by multiplication with a train of pulses......which corresponds to convolution in the frequency domain

9 Review: The Fourier Transform Consider some time-domain signal, x(t), which has frequency transform, X(ω) FT FT -1 e ix = cos(x) + isin(x)

10 Review: time-sampling Sampling x(t) means multiplying it by a pulse train This means convolving X(f) with the FT of the pulse train pulse train time signal Convolved freq. signal

11 Windowing Multiply by window W(t), or convolve with a sinc W(f) in freq: windowed pulse train time signal FT[window] Convolved freq. signal

12 The DFT The DFT: The DFT -1:

13 Where is the heart rate?

14 Signal Processing Artifacts Filter distortion Finite Impulse Response pass band ripple, amplitude attenuation Infinite Impulse Filters phase distortion

15 Recap Analogue Filters Kirchoff s laws give: Therefore: Which can be discretised:

16 Recap Analogue Filters Magnitude of gains:... and phases: Impulse responses: (Inverse Laplace Transform of H... with =RC... i.e. Response of circuit to a Dirac delta (t). Note u(t) is Heaviside function) and a three poles (origin, =1/RC)

17 Recap Analogue Filters Nonlinear amplification / attenuation Nonlinear phase distortion Different frequencies are delayed by different amounts

Recap Digital Filters A filter transforms the input signal: X is transformed into Y by multiplying by a transfer function H H is composed of two types of coefficients (a & b) The a s multiply

18 Recap Digital Filters A filter transforms the input signal: X is transformed into Y by multiplying by a transfer function H H is composed of two types of coefficients (a & b) The a s multiply the input signal (X) only The b s include the output in the calculation P is the feedforward order and Q the feedback order Poles of filter are found by setting denominator of H equal to zero

19 Frequency & Phase Response Convert an impulse function to frequency and phase response. E.g. bk ={0.3, 0.7, 0, -0.3, -0.7}

20 Signal Processing Artifacts Filter distortion Finite Impulse Response pass band ripple, amplitude attenuation Infinite Impulse Filters phase distortion

21 Gibbs Oscillations / Ringing Consequence of convolving impulse response of window (sinc function) with signal In electrical circuits= oscillation of V or I when electrical pulse causes the parasitic C & L (from other materials on IC)

22 AR models for spectral estimation The notation AR(p) refers to the autoregressive model of order p. The AR(p) model is written as follows: Y t = a i Y t-i + t (1 i p) where the a i s are the parameters of the model and ε t is a white-noise process with zero mean. An autoregressive model is essentially an infinite impulse response filter which shapes the white-noise input. The poles are the resonances of the filter and correspond to the spectral peaks in the signal.

23 AR-model vs FFT spectra (for EEG) AR model is parametric Requires only a few coefficients Useful for estimation on short time series

25 Credits DFT slides Dr David Clifton PSD slide Dr James Pardey

Biosignal filtering and artifact rejection. Biosignal processing I, S Autumn 2017

Biosignal filtering and artifact rejection Biosignal processing I, 52273S Autumn 207 Motivation ) Artifact removal power line non-stationarity due to baseline variation muscle or eye movement artifacts