X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=mothurmetastats.h;fp=mothurmetastats.h;h=4d6cf9166816f9f775e97eedc8a3231ec6daecd8;hb=0caf3fbabaa3ece404f8ce77f4c883dc5b1bf1dc;hp=0000000000000000000000000000000000000000;hpb=1b73ff67c83892a025e597dabd9df6fe7b58206a;p=mothur.git

diff --git a/mothurmetastats.h b/mothurmetastats.h
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+++ b/mothurmetastats.h
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+#ifndef MOTHUR_METASTATS
+#define MOTHUR_METASTATS
+
+/*
+ *  mothurmetastats.h
+ *  Mothur
+ *
+ *  Created by westcott on 7/6/11.
+ *  Copyright 2011 Schloss Lab. All rights reserved.
+ *
+ */
+
+
+#include "mothurout.h"
+
+class MothurMetastats {
+	
+	public:
+		MothurMetastats(double, int); //threshold, numPermutations
+		~MothurMetastats();
+	
+		int runMetastats(string, vector< vector<double> >&, int); //outputFileName, data, secondGroupingStart
+	
+	private:
+		MothurOut* m;
+		int row, column, numPermutations, secondGroupingStart;
+		double threshold;
+        
+    vector<double> permuted_pvalues(vector< vector<double> >&, vector<double>&, vector< vector<double> >&);
+    vector<double> permute_and_calc_ts(vector< vector<double> >&);
+    
+		int start(vector<double>&, int, vector<double>&, vector< vector<double> >&); //Find the initial values for the matrix
+		int meanvar(vector<double>&, int, vector<double>&);
+		int testp(vector<double>&, vector<double>&, vector<double>&, int, vector<double>&, vector<double>&);
+		int permute_matrix(vector<double>&, vector<double>&, int, vector<double>&, vector<double>&, vector<double>&);
+		int permute_array(vector<int>&);
+		int calc_twosample_ts(vector<double>&, int, vector<double>&, vector<double>&, vector<double>&);
+		double smoothSpline(vector<double>&, vector<double>&, int);
+		vector<double> calc_qvalues(vector<double>&);
+		vector<double> sknot1(double*, int);
+		int nkn(int);
+		int OrderPValues(int, int, vector<double>&, vector<int>&);
+		int swapElements(int, int, vector<double>&, vector<int>&);
+		vector<int> getSequence(int, int, int);
+		
+};
+	
+#endif
+