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annotate m-toolbox/classes/+utils/@math/boxplot.m @ 52:daf4eab1a51e database-connection-manager tip

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Fix. Default password should be [] not an empty string
author Daniele Nicolodi <nicolodi@science.unitn.it>
date Wed, 07 Dec 2011 17:29:47 +0100
parents f0afece42f48
children
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Daniele Nicolodi <nicolodi@science.unitn.it>
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1 % BOXPLOT draw box plot on data
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Daniele Nicolodi <nicolodi@science.unitn.it>
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2 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
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Daniele Nicolodi <nicolodi@science.unitn.it>
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3 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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4 % DESCRIPTION: Boxplot is a convenient way of graphically depicting groups
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Daniele Nicolodi <nicolodi@science.unitn.it>
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5 % of numerical data. The bottom and top of the box are always the 25th and
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Daniele Nicolodi <nicolodi@science.unitn.it>
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6 % 75th percentile (the lower and upper quartiles, respectively), and the
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Daniele Nicolodi <nicolodi@science.unitn.it>
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7 % band near the middle of the box is always the 50th percentile (the
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Daniele Nicolodi <nicolodi@science.unitn.it>
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8 % median). The ends of the whiskers are the percentiles corresponding to
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Daniele Nicolodi <nicolodi@science.unitn.it>
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9 % the confidence level defined by the user.
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Daniele Nicolodi <nicolodi@science.unitn.it>
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10 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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11 % CALL: boxplot(d1,...,dn, ops)
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12 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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13 % INPUT: - d1,...dn, are column vectors. Different data must be input
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14 % as different columns.
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Daniele Nicolodi <nicolodi@science.unitn.it>
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15 % - ops, a struct containing input parameters
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Daniele Nicolodi <nicolodi@science.unitn.it>
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16 % - PlotData. Decide to plot all data or only the data
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Daniele Nicolodi <nicolodi@science.unitn.it>
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17 % outside the confidence levels. Default true
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Daniele Nicolodi <nicolodi@science.unitn.it>
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18 % - ConfLevel. Confidence level for box whiskers. Default 95%
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Daniele Nicolodi <nicolodi@science.unitn.it>
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19 % - FontSize. Font size for x and y labels. Default 22
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Daniele Nicolodi <nicolodi@science.unitn.it>
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20 % - LineWidth. Box line width. Default 2
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Daniele Nicolodi <nicolodi@science.unitn.it>
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21 % - BoxWidth. the width of the box. Default 1
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Daniele Nicolodi <nicolodi@science.unitn.it>
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22 % - Marker. Data marker type. Default '.'
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Daniele Nicolodi <nicolodi@science.unitn.it>
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23 % - MarkerSize. Data marker size. Default 1
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Daniele Nicolodi <nicolodi@science.unitn.it>
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24 % - XTickLabel. A cell containing a cell aray of x tick
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Daniele Nicolodi <nicolodi@science.unitn.it>
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25 % labels. Default {{''}}
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26 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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27 % acknowledgements
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Daniele Nicolodi <nicolodi@science.unitn.it>
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28 % A special thanks to Shane Lin who submitted the boxPlot function in
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Daniele Nicolodi <nicolodi@science.unitn.it>
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29 % Matlab Central to which the present function is inspired
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Daniele Nicolodi <nicolodi@science.unitn.it>
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30 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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31 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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32 % Luigi Ferraioli 13-02-2011
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33 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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34 % $Id: boxplot.m,v 1.4 2011/02/22 14:02:03 luigi Exp $
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Daniele Nicolodi <nicolodi@science.unitn.it>
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35 %
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Daniele Nicolodi <nicolodi@science.unitn.it>
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36 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
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Daniele Nicolodi <nicolodi@science.unitn.it>
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37 function boxplot(varargin)
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Daniele Nicolodi <nicolodi@science.unitn.it>
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38
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Daniele Nicolodi <nicolodi@science.unitn.it>
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39 %%% check and set imput options
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Daniele Nicolodi <nicolodi@science.unitn.it>
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40 % Default input struct
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Daniele Nicolodi <nicolodi@science.unitn.it>
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41 defaultparams = struct(...
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Daniele Nicolodi <nicolodi@science.unitn.it>
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42 'PlotData',true,...
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Daniele Nicolodi <nicolodi@science.unitn.it>
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43 'ConfLevel',0.95,...
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Daniele Nicolodi <nicolodi@science.unitn.it>
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44 'FontSize',22,...
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Daniele Nicolodi <nicolodi@science.unitn.it>
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45 'LineWidth',2,...
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Daniele Nicolodi <nicolodi@science.unitn.it>
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46 'BoxWidth',1,...
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47 'Marker','.',...
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Daniele Nicolodi <nicolodi@science.unitn.it>
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48 'MarkerSize',1,...
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49 'XTickLabel',{{''}});
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50
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51
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52 names = {'PlotData','ConfLevel','FontSize','LineWidth','BoxWidth',...
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53 'Marker','MarkerSize','XTickLabel'};
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54
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55
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Daniele Nicolodi <nicolodi@science.unitn.it>
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56 N = numel(varargin);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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57 if isstruct(varargin{N})
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Daniele Nicolodi <nicolodi@science.unitn.it>
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58 ops = varargin{N};
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Daniele Nicolodi <nicolodi@science.unitn.it>
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59 Nloop = N-1;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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60 else
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Daniele Nicolodi <nicolodi@science.unitn.it>
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61 ops = {};
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Daniele Nicolodi <nicolodi@science.unitn.it>
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62 Nloop = N;
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63 end
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64
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Daniele Nicolodi <nicolodi@science.unitn.it>
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65 % collecting input and default params
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Daniele Nicolodi <nicolodi@science.unitn.it>
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66 if ~isempty(ops)
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Daniele Nicolodi <nicolodi@science.unitn.it>
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67 for jj=1:length(names)
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Daniele Nicolodi <nicolodi@science.unitn.it>
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68 if isfield(ops, names(jj))
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Daniele Nicolodi <nicolodi@science.unitn.it>
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69 defaultparams.(names{1,jj}) = ops.(names{1,jj});
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70 end
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71 end
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72 end
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73
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74 conf = defaultparams.ConfLevel; % confidence level for confidence bounds calculation
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Daniele Nicolodi <nicolodi@science.unitn.it>
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75 if conf>1
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Daniele Nicolodi <nicolodi@science.unitn.it>
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76 conf = conf/100;
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77 end
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Daniele Nicolodi <nicolodi@science.unitn.it>
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78 plotdata = defaultparams.PlotData;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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79 fontsize = defaultparams.FontSize;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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80 lwidth = defaultparams.LineWidth;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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81 bwidth = defaultparams.BoxWidth;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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82 mark = defaultparams.Marker;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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83 mksize = defaultparams.MarkerSize;
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84 xticklabel = defaultparams.XTickLabel;
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85
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86
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Daniele Nicolodi <nicolodi@science.unitn.it>
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87 %%% draw the plot
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Daniele Nicolodi <nicolodi@science.unitn.it>
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88 drawBox(varargin(1:Nloop),Nloop,conf,plotdata,lwidth,bwidth,mark,mksize)
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89
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Daniele Nicolodi <nicolodi@science.unitn.it>
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90 % set ylabel
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Daniele Nicolodi <nicolodi@science.unitn.it>
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91 ylabel('Values','FontSize',fontsize)
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Daniele Nicolodi <nicolodi@science.unitn.it>
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92 % set xlabel
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Daniele Nicolodi <nicolodi@science.unitn.it>
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93 xlabel('Experiment','FontSize',fontsize)
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Daniele Nicolodi <nicolodi@science.unitn.it>
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94
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Daniele Nicolodi <nicolodi@science.unitn.it>
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95 % set XTickLabel
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Daniele Nicolodi <nicolodi@science.unitn.it>
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96 if ~isempty(xticklabel{1})
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Daniele Nicolodi <nicolodi@science.unitn.it>
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97 set(gca,'XTickLabel',xticklabel)
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98 end
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99
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100 end
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101
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Daniele Nicolodi <nicolodi@science.unitn.it>
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102 function drawBox(data,Nloop,conf,plotdata,lwidth,bwidth,mark,mksize)
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Daniele Nicolodi <nicolodi@science.unitn.it>
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103
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Daniele Nicolodi <nicolodi@science.unitn.it>
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104 % define box width
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Daniele Nicolodi <nicolodi@science.unitn.it>
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105 unit = (1-1/(1+Nloop))/(1+9/(bwidth+3));
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106
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Daniele Nicolodi <nicolodi@science.unitn.it>
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107 figure;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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108 hold on;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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109 v = zeros(5,1);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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110 for ii = 1:Nloop
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Daniele Nicolodi <nicolodi@science.unitn.it>
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111 % sort data acsending
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Daniele Nicolodi <nicolodi@science.unitn.it>
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112 sdata = sort(data{ii});
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Daniele Nicolodi <nicolodi@science.unitn.it>
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113 % get data median
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114 v(1) = median(sdata);
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115
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Daniele Nicolodi <nicolodi@science.unitn.it>
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116 % get cdf
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Daniele Nicolodi <nicolodi@science.unitn.it>
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117 [F,x] = utils.math.ecdf(sdata);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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118 % set box lower and upper limit, corresponding to a 25% and 75%
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Daniele Nicolodi <nicolodi@science.unitn.it>
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119 % probability
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Daniele Nicolodi <nicolodi@science.unitn.it>
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120 v(2) = interp1(F,x,0.25); % 25% limit
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Daniele Nicolodi <nicolodi@science.unitn.it>
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121 v(3) = interp1(F,x,0.75); % 75% limit
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Daniele Nicolodi <nicolodi@science.unitn.it>
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122 % set wisker limits
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Daniele Nicolodi <nicolodi@science.unitn.it>
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123 alpm = (1-conf)/2;
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Daniele Nicolodi <nicolodi@science.unitn.it>
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124 v(4) = interp1(F,x,alpm); % lower limit
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Daniele Nicolodi <nicolodi@science.unitn.it>
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125 v(5) = interp1(F,x,1-alpm); % upper limit
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126
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127 % draw data
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128 if plotdata % plot all data
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Daniele Nicolodi <nicolodi@science.unitn.it>
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129 stddata = std(sdata);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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130 % set x for data
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Daniele Nicolodi <nicolodi@science.unitn.it>
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131 uunit = unit.*exp(-1.*((sdata-v(1)).^2)./(stddata).^2).*9./10;
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132 xdat = ii-uunit + 2*uunit.*rand(size(sdata));
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Daniele Nicolodi <nicolodi@science.unitn.it>
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133 plot(xdat,sdata,[mark 'b'], 'MarkerSize', mksize);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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134 else % plot only data outside confidence levels
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135 idx1 = find(sdata<v(4));
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136 idx2 = find(sdata>v(5));
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137 idx = [idx1;idx2];
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138 xdat = ii.*ones(size(idx));
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Daniele Nicolodi <nicolodi@science.unitn.it>
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139 plot(xdat,sdata(idx),[mark 'b'], 'MarkerSize', mksize);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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140 end
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Daniele Nicolodi <nicolodi@science.unitn.it>
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141 % draw the min line
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Daniele Nicolodi <nicolodi@science.unitn.it>
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142 plot([ii-unit, ii+unit], [v(4), v(4)], 'k', 'LineWidth', lwidth);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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143 % draw the max line
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Daniele Nicolodi <nicolodi@science.unitn.it>
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144 plot([ii-unit, ii+unit], [v(5), v(5)], 'k', 'LineWidth', lwidth);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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145 % draw middle line
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Daniele Nicolodi <nicolodi@science.unitn.it>
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146 plot([ii-unit, ii+unit], [v(1), v(1)], 'r', 'LineWidth', lwidth);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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147 % draw vertical line
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Daniele Nicolodi <nicolodi@science.unitn.it>
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148 plot([ii, ii], [v(4), v(2)], '--k', 'LineWidth', lwidth);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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149 plot([ii, ii], [v(3), v(5)], '--k', 'LineWidth', lwidth);
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Daniele Nicolodi <nicolodi@science.unitn.it>
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150 % draw box
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Daniele Nicolodi <nicolodi@science.unitn.it>
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151 plot([ii-unit, ii+unit, ii+unit, ii-unit, ii-unit], [v(3), v(3), v(2), v(2), v(3)], 'k', 'LineWidth', lwidth);
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152
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153
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154
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155
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156 end
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157
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158 end