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PILISScoring.h (Maintainer: Andreas Bertsch)

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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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