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Remove broken functions from utils.jmysql
author Daniele Nicolodi <nicolodi@science.unitn.it>
date Mon, 05 Dec 2011 16:20:06 +0100
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1 <h2>Description</h2>
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2 <p>
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3 The LTPDA method <a href="matlab:doc('ao/lcohere')">ao/lcohere</a> estimates the coherence function of time-series
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4 signals, included in the input <tt>ao</tt>s following the LPSD algorithm <a href="#references">[1]</a>. Spectral density estimates are not
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5 evaluated at frequencies which are linear multiples of the minimum frequency resolution <tt>1/T</tt>, where <tt>T</tt>
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6 is the window lenght, but on a logarithmic scale. The algorithm takes care of calculating the frequencies at which to evaluate
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7 the spectral estimate, aiming at minimizing the uncertainty in the estimate itself, and to recalculate a suitable
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8 window length for each frequency bin.
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9 </p>
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10 <p>
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11 Data are windowed prior to the estimation of the spectrum, by multiplying
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12 it with a <a href="specwin.html">spectral window object</a>, and can be detrended by polinomial of time in order to reduce the impact
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13 of the border discontinuities. Detrending is performed on each individual window.
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14 The user can choose the quantity being given in output among ASD (amplitude spectral density),
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15 PSD (power spectral density), AS (amplitude spectrum), and PS (power spectrum).
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16 </p>
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17 <br>
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18 <h2>Syntax</h2>
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19 </p>
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20 <div class="fragment"><pre>
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21 <br> b = lcohere(a1,a2,pl)
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22 </pre>
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23 </div>
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24 <p> <tt>a1</tt> and <tt>a2</tt> are the 2 <tt>ao</tt>s containing the input time series to be evaluated, <tt>b</tt> is the output object and <tt>pl</tt> is an optional parameter list.
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25
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26 <h2>Parameters</h2>
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27 <p>The parameter list <tt>pl</tt> includes the following parameters:</p>
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28 <ul>
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29 <li> <tt>'Kdes'</tt> - desired number of averages [default: 100]</li>
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30 <li> <tt>'Jdes'</tt> - number of spectral frequencies to compute [default: 1000]</li>
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31 <li> <tt>'Lmin'</tt> - minimum segment length [default: 0]</li>
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32 <li> <tt>'Win'</tt> - the window to be applied to the data to remove the
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33 discontinuities at edges of segments. [default: taken from user prefs].<br>
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34 The window is described by a string with its name and, only in the case of Kaiser window,
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35 the additional parameter <tt>'psll'</tt>. <br>For instance: plist('Win', 'Kaiser', 'psll', 200). </li>
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36 <li> <tt>'Olap'</tt> - segment percent overlap [default: -1, (taken from window function)] </li>
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37 <li> <tt>'Order'</tt> - order of segment detrending <ul>
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38 <li> -1 - no detrending </li>
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39 <li> 0 - subtract mean [default] </li>
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40 <li> 1 - subtract linear fit </li>
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41 <li> N - subtract fit of polynomial, order N </li> </ul> </li>
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42 <li><tt>'Type'</tt> - type of scaling of the coherence function. Choose between:</li>
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43 <ul>
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44 <li> <tt>'C'</tt> - Complex Coherence Sxy / sqrt(Sxx * Syy) [default ]</li>
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45 <li> <tt>'MS'</tt> - Magnitude-Squared Coherence (abs(Sxy))^2 / (Sxx * Syy) </li>
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46 </ul>
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47 </ul>
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48 The length of the window is set by the value of the parameter <tt>'Nfft'</tt>, so that the window
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49 is actually rebuilt using only the key features of the window, i.e. the name and, for Kaiser windows, the PSLL.
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50 </p>
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51 <p>
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52 <table cellspacing="0" class="note" summary="Note" cellpadding="5" border="1">
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53 <tr width="90%">
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54 <td>
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55 If the user doesn't specify the value of a given parameter, the default value is used.
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56 </td>
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57 </tr>
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58 </table>
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59 </p>
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60 <p>
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61 The function makes magnitude-squadred coherence estimates between the 2 input <tt>ao</tt>s, on a logaritmic frequency scale.
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62 If passing two identical objects <tt>ai</tt> or linearly combined signals, the output will be 1 at all frequencies.</p>
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63 </pre> </div>
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64 </p>
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65 <h2>Algorithm</h2>
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66 <p>
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67 The algorithm is implemented according to <a href="#references">[1]</a>. The standard deviation of the mean is computed according to <a href="#references">[2]</a>:
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68 </p>
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69 <div align="center">
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70 <img src="images/cohere_sigma1.png" >
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71 </div>
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72 where
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73 <div align="center">
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74 <img src="images/tfe_sigma2.png" >
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75 </div>
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76 <br>
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77 <p>
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78 is the coherence function.
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79 In the LPSD algorithm, the first frequencies bins are usually computed using a single segment containing all the data.
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80 For these bins, the sample variance is set to <tt>Inf</tt>.
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81 </p>
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82 <h2>Example</h2>
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83 <p>
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84 Evaluation of the coherence of two time-series represented by: a low frequency sinewave signal superimposed to
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85 white noise, and a low frequency sinewave signal at the same frequency, phase shifted and with different
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86 amplitude, superimposed to white noise.
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87 </p>
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88 <div class="fragment"><pre>
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89 <br> <span class="comment">% Parameters</span>
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90 nsecs = 1000;
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91 fs = 10;
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92 x = ao(plist(<span class="string">'waveform'</span>,<span class="string">'sine wave'</span>,<span class="string">'f'</span>,0.1,<span class="string">'A'</span>,1,<span class="string">'nsecs'</span>,nsecs,<span class="string">'fs'</span>,fs)) + ...
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93 ao(plist(<span class="string">'waveform'</span>,<span class="string">'noise'</span>,<span class="string">'type'</span>,<span class="string">'normal'</span>,<span class="string">'nsecs'</span>,nsecs,<span class="string">'fs'</span>,fs));
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94 x.setYunits(<span class="string">'m'</span>);
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95 y = ao(plist(<span class="string">'waveform'</span>,<span class="string">'sine wave'</span>,<span class="string">'f'</span>,0.1,<span class="string">'A'</span>,2,<span class="string">'nsecs'</span>,nsecs,<span class="string">'fs'</span>,fs,<span class="string">'phi'</span>,90)) + ...
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96 4*ao(plist(<span class="string">'waveform'</span>,<span class="string">'noise'</span>,<span class="string">'type'</span>,<span class="string">'normal'</span>,<span class="string">'nsecs'</span>,nsecs,<span class="string">'fs'</span>,fs));
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97 y.setYunits(<span class="string">'V'</span>);
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98
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99 <span class="comment">% Compute log coherence</span>
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100 Cxy = lcohere(x,y,plist(<span class="string">'win'</span>,<span class="string">'Kaiser'</span>,<span class="string">'psll'</span>,200));
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101
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102 <span class="comment">% Plot</span>
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103 iplot(Cxy);
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104 </pre>
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105 </div>
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106
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107 <img src="images/l_cohere_1.png" alt="" border="3">
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108 <br>
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109 <!-- <img src="images/l_cohere_2.png" alt="" border="3">
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110 <br> -->
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111
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112 <h2><a name="references">References</a></h2>
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113
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114 <ol>
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115 <li> M. Troebs, G. Heinzel, Improved spectrum estimation from digitized time series
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116 on a logarithmic frequency axis, <a href="http://dx.doi.org/10.1016/j.measurement.2005.10.010" ><i>Measurement</i>, Vol. 39 (2006), pp. 120 - 129</a>. See also the <a href="http://dx.doi.org/10.1016/j.measurement.2008.04.004" >Corrigendum</a>.</li>
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117 <li> G.C. Carter, C.H. Knapp, A.H. Nuttall, Estimation of the Magnitude-Squared Coherence Function Via Overlapped Fast Fourier Transform Processing
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118 , <i>IEEE Trans. on Audio and Electroacoustics</i>, Vol. 21, No. 4 (1973), pp. 337 - 344.</a></li>
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119 </ol>