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/*
* segemehl - a read aligner
* Copyright (C) 2008-2017 Steve Hoffmann and Christian Otto
*
* 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 KARLIN_H
#define KARLIN_H
/*
*
* karlin.h
* declaration for karlin.c
*
* @author Steve Hoffmann, steve@bioinf.uni-leipzig.de
* @company Bioinformatics, University of Leipzig
* @date 05/06/2008 08:55:40 PM CEST
*
* SVN
* Revision of last commit: $Rev: 19 $
* Author: $Author: steve $
* Date: $Date: 2008-05-14 15:43:29 +0200 (Wed, 14 May 2008) $
*
* Id: $Id: karlin.h 19 2008-05-14 13:43:29Z steve $
* Url: $URL: file:///homes/bierdepot/steve/svn/segemehl/trunk/libs/karlin.h $
*/
typedef struct karlin_s {
double lambda;
double H;
double K;
} karlin_t;
int karlinunitcostpp(void *space, double *lambda, double*H, double *K);
double significance (double lambda,double K,double multiplier, int score);
double evalue (double lambda,double K,double multiplier, int score);
double explength(Uint m, Uint n, double H, double K);
double effSubjectLength(Uint m, Uint n, double H, double K);
double effQueryLength(Uint m, Uint n, double H, double K);
double spacemult(Uint m, Uint n, double H, double K);
double evaluelog (double lambda, double K, double multiplier, int score);
#endif
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