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47 lines
1.0 KiB
C++
47 lines
1.0 KiB
C++
// $Id: bootstrapProvider.h 1282 2006-12-05 11:03:10Z privmane $
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#ifndef ___BOOTSTRAP_PROVIDER
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#define ___BOOTSTRAP_PROVIDER
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#include "bootstrap.h"
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#include "definitions.h"
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#include "mainSemphy.h"
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#include "semphy_cmdline.h"
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#include "stochasticProcess.h"
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#include "tree.h"
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#include <vector>
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#include <map>
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using namespace std;
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class bootstrapProvider {
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public:
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explicit bootstrapProvider(const gengetopt_args_info& gn);
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// this function creates the many tree.
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void computeBP(mainSemphy & ms);
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void computeConsensus(const MDOUBLE treshold);
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void computeConsensus();
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void output(ostream & out) const;
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private:
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void createRandomWeights(const int seqLen);
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void computeTreeSupport(const tree& et);
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gengetopt_args_info _args_info;
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vector<tree> _treeVec;
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vector<MDOUBLE> _likelihoodVec;
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vector<stochasticProcess> _stochasticProcessVec;
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vector<MDOUBLE> _weights;
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tree _consensusTree;
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bootstrap* _bp;
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tree _inputTree; // the tree on which support is computed.
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map<int, MDOUBLE> _treeSupport;
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};
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#endif
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