doxygen-biomcmclib/splitset__distances_8h_source.html

 /*
  * 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_splitset_distances_h_
 #define _biomcmc_splitset_distances_h_

 #include "reconciliation.h"

 splitset new_splitset_genespecies (topology gene, topology species, reconciliation rec);
 void del_splitset (splitset split);
 int dSPR_gene_species (topology gene, topology species, splitset split);
 int dSPR_gene_species_rf (topology gene, topology species, splitset split);
 int dSPR_gene_species_hdist (topology gene, topology species, splitset split);

 #endif
splitset_struct
Definition: genetree.h:66

reconciliation_struct
mapping between gene tree nodes (this) and (external) species tree nodes
Definition: genetree.h:48

dSPR_gene_species_hdist
int dSPR_gene_species_hdist(topology gene, topology species, splitset split)
h distance (edge disagreement assignment cost) between unrooted gene and species trees (leafset mappi...
Definition: splitset_distances.c:197

reconciliation.h
low-level file for gene tree and species tree reconciliation. This file is hidden from user and conta...

dSPR_gene_species
int dSPR_gene_species(topology gene, topology species, splitset split)
approximate dSPR between unrooted gene and species trees (leafset mapping)
Definition: splitset_distances.c:179

del_splitset
void del_splitset(splitset split)
free memory allocated for splitset structure
Definition: splitset_distances.c:81

new_splitset_genespecies
splitset new_splitset_genespecies(topology gene, topology species, reconciliation rec)
Splitset structure for dSPR calculation (also allocates aux vectors)
Definition: splitset_distances.c:108

dSPR_gene_species_rf
int dSPR_gene_species_rf(topology gene, topology species, splitset split)
RF distance between unrooted gene and species trees (leafset mapping)
Definition: splitset_distances.c:190

topology_struct
Binary unrooted topology (rooted at leaf with ID zero)
Definition: topology_common.h:47