1 | // $Id: FoldChange.cc 1120 2008-02-21 23:18:41Z peter $ |
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2 | |
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3 | /* |
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4 | Copyright (C) 2005 Peter Johansson |
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5 | Copyright (C) 2006 Jari Häkkinen, Peter Johansson |
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6 | Copyright (C) 2007 Peter Johansson |
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7 | |
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8 | This file is part of the yat library, http://trac.thep.lu.se/yat |
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9 | |
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10 | The yat library is free software; you can redistribute it and/or |
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11 | modify it under the terms of the GNU General Public License as |
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12 | published by the Free Software Foundation; either version 2 of the |
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13 | License, or (at your option) any later version. |
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14 | |
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15 | The yat library is distributed in the hope that it will be useful, |
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16 | but WITHOUT ANY WARRANTY; without even the implied warranty of |
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17 | MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
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18 | General Public License for more details. |
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19 | |
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20 | You should have received a copy of the GNU General Public License |
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21 | along with this program; if not, write to the Free Software |
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22 | Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA |
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23 | 02111-1307, USA. |
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24 | */ |
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25 | |
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26 | #include "FoldChange.h" |
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27 | #include "Score.h" |
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28 | #include "Averager.h" |
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29 | #include "AveragerWeighted.h" |
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30 | #include "yat/classifier/DataLookupWeighted1D.h" |
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31 | #include "yat/classifier/Target.h" |
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32 | #include "yat/utility/VectorBase.h" |
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33 | |
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34 | namespace theplu { |
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35 | namespace yat { |
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36 | namespace statistics { |
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37 | |
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38 | FoldChange::FoldChange(bool absolute) |
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39 | : Score(absolute) |
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40 | { |
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41 | } |
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42 | |
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43 | double FoldChange::score(const classifier::Target& target, |
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44 | const utility::VectorBase& value) const |
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45 | { |
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46 | Averager pos; |
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47 | Averager neg; |
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48 | |
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49 | for (size_t i=0; i<value.size(); i++) |
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50 | if (target.binary(i)) |
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51 | pos.add(value(i)); |
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52 | else |
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53 | neg.add(value(i)); |
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54 | |
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55 | if (absolute_) |
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56 | return fabs(pos.mean()-neg.mean()); |
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57 | return pos.mean()-neg.mean(); |
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58 | } |
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59 | |
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60 | double FoldChange::score(const classifier::Target& target, |
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61 | const classifier::DataLookupWeighted1D& value) const |
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62 | { |
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63 | AveragerWeighted pos; |
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64 | AveragerWeighted neg; |
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65 | |
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66 | for (size_t i=0; i<value.size(); i++) |
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67 | if (target.binary(i)) |
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68 | pos.add(value.data(i),value.weight(i)); |
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69 | else |
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70 | neg.add(value.data(i),value.weight(i)); |
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71 | |
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72 | if (absolute_) |
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73 | return fabs(pos.mean()-neg.mean()); |
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74 | return pos.mean()-neg.mean(); |
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75 | } |
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76 | |
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77 | double FoldChange::score(const classifier::Target& target, |
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78 | const utility::VectorBase& value, |
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79 | const utility::VectorBase& weight) const |
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80 | { |
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81 | AveragerWeighted pos; |
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82 | AveragerWeighted neg; |
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83 | |
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84 | for (size_t i=0; i<value.size(); i++) |
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85 | if (target.binary(i)) |
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86 | pos.add(value(i),weight(i)); |
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87 | else |
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88 | neg.add(value(i),weight(i)); |
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89 | |
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90 | if (absolute_) |
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91 | return fabs(pos.mean()-neg.mean()); |
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92 | return pos.mean()-neg.mean(); |
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93 | } |
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94 | |
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95 | }}} // of namespace statistics, yat, and theplu |
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