topology_randomise.h

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/* 
 * This file is part of biomcmc-lib, a low-level library for phylogenomic analysis.
 * Copyright (C) 2019-today  Leonardo de Oliveira Martins [ leomrtns at gmail.com;  http://www.leomartins.org ]
 *
 * biomcmc 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 2 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 (file "COPYING" or http://www.gnu.org/copyleft/gpl.html).
 */

#ifndef _biomcmc_randomise_h_
#define _biomcmc_randomise_h_

#include "topology_distance.h" 
#include "prob_distribution.h"

void randomise_topology (topology tree);
void quasi_randomise_topology (topology tree, int sample_type);

void create_parent_node_from_children (topology tree, int parent, int lchild, int rchild);
void topology_apply_rerooting (topology tree, bool update_done);
void topology_apply_shortspr (topology tree, bool update_done);
void topology_apply_shortspr_weighted (topology tree, double *prob, bool update_done);
void topology_apply_spr_on_subtree (topology tree, topol_node lca, bool update_done);
void topology_apply_spr (topology tree, bool update_done);
void topology_apply_spr_unrooted (topology tree, bool update_done);
void topology_apply_nni (topology tree, bool update_done);
bool cant_apply_swap (topology tree);

#endif