X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bayesian.h;fp=bayesian.h;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=7c884337495dbb1e0213d1171a54ca20e0eb932c;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/bayesian.h b/bayesian.h
deleted file mode 100644
index 7c88433..0000000
--- a/bayesian.h
+++ /dev/null
@@ -1,50 +0,0 @@
-#ifndef BAYESIAN_H
-#define BAYESIAN_H
-
-/*
- *  bayesian.h
- *  Mothur
- *
- *  Created by westcott on 11/3/09.
- *  Copyright 2009 Schloss Lab. All rights reserved.
- *
- */
-
-#include "mothur.h"
-#include "classify.h"
-
-/**************************************************************************************************/
-
-class Bayesian : public Classify {
-	
-public:
-	Bayesian(string, string, string, int, int, int, int, bool);
-	~Bayesian();
-	
-	string getTaxonomy(Sequence*);
-	
-private:
-	vector< vector<float> > wordGenusProb;	//vector of maps from genus to probability
-										//wordGenusProb[0][392] = probability that a sequence within genus that's index in the tree is 392 would contain kmer 0;
-	
-	vector<int> genusTotals;
-	vector<int> genusNodes;  //indexes in phyloTree where genus' are located
-	
-	vector<diffPair> WordPairDiffArr; 
-	
-	int kmerSize, numKmers, confidenceThreshold, iters;
-	
-	string bootstrapResults(vector<int>, int, int);
-	int getMostProbableTaxonomy(vector<int>);
-	void readProbFile(ifstream&, ifstream&, string, string);
-	bool checkReleaseDate(ifstream&, ifstream&, ifstream&, ifstream&);
-	bool isReversed(vector<int>&);
-	vector<int> createWordIndexArr(Sequence*);
-	int generateWordPairDiffArr();
-	
-};
-
-/**************************************************************************************************/
-
-#endif
-