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51 lines
1.5 KiB
C
51 lines
1.5 KiB
C
// $Id: treeUtil.h 10476 2012-03-18 07:57:33Z itaymay $
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#ifndef ___TREE_UTIL
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#define ___TREE_UTIL
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#include "definitions.h"
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#include "tree.h"
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vector<tree> getStartingTreeVecFromFile(string fileName);
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tree starTree(const vector<string>& names);
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void getStartingTreeVecFromFile(string fileName,
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vector<tree>& vecT,
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vector<char>& constraintsOfT0);
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vector<tree> getNexusTreesFromFile (const string& nexusTreesFile);
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bool sameTreeTolopogy(tree t1, tree t2);
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bool cutTreeToTwo(tree bigTree,
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const string& nameOfNodeToCut,
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tree &small1,
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tree &small2);
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tree::nodeP makeNodeBetweenTwoNodes( tree& et,
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tree::nodeP nodePTR1,
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tree::nodeP nodePTR2,
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const string &interName);
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void cutTreeToTwoSpecial(const tree& source,
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tree::nodeP intermediateNode,
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tree &resultT1PTR,
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tree &resultT2PTR);
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vector<string> getSequencesNames(const tree& t);
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MDOUBLE getSumOfBranchLengths(const tree &t);
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void printDataOnTreeAsBPValues(ostream &out, Vstring &data, tree &tr) ;
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void printDataOnTreeAsBPValues(ostream &out, Vstring &data, const tree::nodeP &myNode) ;
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MDOUBLE getDistanceFromNode2ROOT(const tree::nodeP &myNode);
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void fillAllNodesNames(Vstring& Vnames,const tree& tr);
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void printTreeWithValuesAsBP(ostream &out, const tree &tr, Vstring values, VVVdouble *probs, int from, int to);
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void printTreeWithValuesAsBP(ostream &out, const tree::nodeP &myNode, Vstring values, VVVdouble *probs, int from, int to);
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#endif
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