masses.hpp

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#ifndef GENESIS_PLACEMENT_FUNCTION_MASSES_H_
#define GENESIS_PLACEMENT_FUNCTION_MASSES_H_

/*
    Genesis - A toolkit for working with phylogenetic data.
    Copyright (C) 2014-2018 Lucas Czech and HITS gGmbH

    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/>.

    Contact:
    Lucas Czech <lucas.czech@h-its.org>
    Exelixis Lab, Heidelberg Institute for Theoretical Studies
    Schloss-Wolfsbrunnenweg 35, D-69118 Heidelberg, Germany
*/

#include "genesis/placement/sample.hpp"
#include "genesis/placement/sample_set.hpp"
#include "genesis/utils/containers/matrix.hpp"

#include <vector>

namespace genesis {
namespace placement {

// =================================================================================================
//     Mulitplicities
// =================================================================================================

double total_multiplicity( Pquery const& pqry );

double total_multiplicity( Sample const& sample );

// =================================================================================================
//     Masses
// =================================================================================================

std::vector<double> placement_mass_per_edges_with_multiplicities( Sample const& sample );

utils::Matrix<double> placement_mass_per_edges_with_multiplicities( SampleSet const& sample_set );

double total_placement_mass_with_multiplicities( Sample const& smp );

// =================================================================================================
//     Masses without Multiplicities
// =================================================================================================

std::vector<double> placement_mass_per_edge_without_multiplicities( Sample const& sample );

utils::Matrix<double> placement_mass_per_edge_without_multiplicities( SampleSet const& sample_set );

double total_placement_mass_without_multiplicities(  Sample const& smp );

} // namespace placement
} // namespace genesis

#endif // include guard