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hclust.h
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/* Philip T.L.C. Clausen Jan 2017 [email protected] */
/*
* Copyright (c) 2017, Philip Clausen, Technical University of Denmark
* All rights reserved.
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
#include <pthread.h>
#include "matrix.h"
#include "qseqs.h"
#include "vector.h"
extern int * (*initDsDQN)(Matrix *, Vector *, Vector *, int *);
extern long unsigned (*pairQ)(Vector *, int *);
extern int (*updateDsDQNPtr)(Matrix *, Vector *, Vector *, int *, int *, int, int, double, double);
extern int (*popArrangePtr)(Matrix *, Vector *, Vector *, int*, int*, int);
int * initAlloc(Matrix *D, Vector *sD, Vector *Q, int *N);
int * initHNJ(Matrix *D, Vector *sD, Vector *Q, int *N);
int * initHMN(Matrix *D, Vector *sD, Vector *Q, int *N);
int * initDmin(Matrix *D, Vector *sD, Vector *Q, int *N);
int * initDmax(Matrix *D, Vector *sD, Vector *Q, int *N);
long unsigned minQ(Vector *Q, int *P);
long unsigned maxQ(Vector *Q, int *P);
void updatePrevQ(Matrix *D, Vector *sD, Vector *Q, int *N, int *P);
int updateHNJ(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int i, int j, double Li, double Lj);
int updateHMN(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int i, int j, double Li, double Lj);
int updateUPGMA(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int i, int j, double Li, double Lj);
int updateFF(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int i, int j, double Li, double Lj);
int updateCF(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int i, int j, double Li, double Lj);
int HNJ_popArrange(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int pos);
int HMN_popArrange(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int pos);
int UPGMA_popArrange(Matrix *D, Vector *sD, Vector *Q, int *N, int *P, int pos);
int * hclust(Matrix *D, Vector *sD, Vector *Q, int *N, Qseqs **names);