00001 // -*- Mode: C++; tab-width: 2; -*- 00002 // vi: set ts=2: 00003 // 00004 // -------------------------------------------------------------------------- 00005 // OpenMS Mass Spectrometry Framework 00006 // -------------------------------------------------------------------------- 00007 // Copyright (C) 2003-2008 -- Oliver Kohlbacher, Knut Reinert 00008 // 00009 // This library is free software; you can redistribute it and/or 00010 // modify it under the terms of the GNU Lesser General Public 00011 // License as published by the Free Software Foundation; either 00012 // version 2.1 of the License, or (at your option) any later version. 00013 // 00014 // This library is distributed in the hope that it will be useful, 00015 // but WITHOUT ANY WARRANTY; without even the implied warranty of 00016 // MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU 00017 // Lesser General Public License for more details. 00018 // 00019 // You should have received a copy of the GNU Lesser General Public 00020 // License along with this library; if not, write to the Free Software 00021 // Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA 00022 // 00023 // -------------------------------------------------------------------------- 00024 // $Maintainer: Andreas Bertsch $ 00025 // -------------------------------------------------------------------------- 00026 00027 00028 #ifndef OPENMS_ANALYSIS_ID_PILISSCORING_H 00029 #define OPENMS_ANALYSIS_ID_PILISSCORING_H 00030 00031 #include <OpenMS/METADATA/PeptideIdentification.h> 00032 #include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h> 00033 #include <OpenMS/DATASTRUCTURES/HashMap.h> 00034 #include <OpenMS/KERNEL/StandardTypes.h> 00035 00036 #include <vector> 00037 00038 namespace OpenMS 00039 { 00064 class PILISScoring : public DefaultParamHandler 00065 { 00066 00067 public: 00068 00072 00073 PILISScoring(); 00074 00076 PILISScoring(const PILISScoring& source); 00077 00079 virtual ~PILISScoring(); 00081 00083 PILISScoring& operator = (const PILISScoring& source); 00084 00088 00089 void getScores(std::vector<PeptideIdentification>& ids); 00090 00092 void getScore(PeptideIdentification& id); 00094 00095 protected: 00096 00098 void getFitParameter_(double& slope, double& intercept, const std::vector<double>& scores, double threshold); 00099 00101 void getSurvivalFunction_(HashMap<UInt, double>& points, std::vector<DPosition<2> >& survival_function); 00102 00104 void getScore_(PeptideIdentification& id, double global_slope, double global_intercept); 00105 00106 }; 00107 } 00108 00109 #endif
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