version 0.95alpha

1 files changed, 0 insertions, 81 deletions

diff --git a/prdt.h b/prdt.h
deleted file mode 100644
index 8af2cee..0000000
--- a/prdt.h
+++ /dev/null
@@ -1,81 +0,0 @@
-/*
-	Genome-wide Efficient Mixed Model Association (GEMMA)
-    Copyright (C) 2011  Xiang Zhou
-
-    This program is free software: you can redistribute it and/or modify
-    it under the terms of the GNU General Public License as published by
-    the Free Software Foundation, either version 3 of the License, or
-    (at your option) any later version.
-
-    This program is distributed in the hope that it will be useful,
-    but WITHOUT ANY WARRANTY; without even the implied warranty of
-    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-    GNU General Public License for more details.
-
-    You should have received a copy of the GNU General Public License
-    along with this program.  If not, see <http://www.gnu.org/licenses/>.
-*/
-
-#ifndef __PRDT_H__                
-#define __PRDT_H__
-
-
-#include <vector>
-#include <map>
-#include <string.h>
-#include "gsl/gsl_vector.h"
-#include "gsl/gsl_matrix.h"
-
-#ifdef FORCE_FLOAT
-#include "param_float.h"
-#else
-#include "param.h"
-#endif
-
-using namespace std;
-
-class PRDT {
-	
-public:
-	// IO related parameters
-	size_t a_mode;
-	size_t d_pace;
-	
-	string file_bfile;
-	string file_geno;
-	string file_out;
-	string path_out;
-	
-	vector<vector<int> > indicator_pheno;
-	vector<int> indicator_cvt;
-	vector<int> indicator_idv;
-	vector<SNPINFO> snpInfo;
-	map<string, double> mapRS2est;
-	
-	size_t n_ph;
-	size_t np_obs, np_miss;
-	size_t ns_total;
-	size_t ns_test;
-	
-	double time_eigen;
-	
-	// Main functions
-	void CopyFromParam (PARAM &cPar);
-	void CopyToParam (PARAM &cPar);
-	void WriteFiles (gsl_vector *y_prdt);
-	void WriteFiles (gsl_matrix *Y_full);
-	void AddBV (gsl_matrix *G, const gsl_vector *u_hat, gsl_vector *y_prdt);
-	void AnalyzeBimbam (gsl_vector *y_prdt);
-	void AnalyzePlink (gsl_vector *y_prdt);
-	void MvnormPrdt (const gsl_matrix *Y_hat, const gsl_matrix *H, gsl_matrix *Y_full);
-};
-
-
-#endif
-
-
-
-
-
-
-