tree/drawing/functions.cpp File Reference

#include "genesis/tree/drawing/functions.hpp"
#include "genesis/tree/common_tree/functions.hpp"
#include "genesis/tree/common_tree/newick_writer.hpp"
#include "genesis/tree/formats/newick/writer.hpp"
#include "genesis/tree/formats/newick/color_writer_plugin.hpp"
#include "genesis/tree/formats/phyloxml/writer.hpp"
#include "genesis/tree/formats/phyloxml/color_writer_plugin.hpp"
#include "genesis/tree/common_tree/phyloxml_writer.hpp"
#include "genesis/tree/drawing/circular_layout.hpp"
#include "genesis/tree/drawing/layout_tree.hpp"
#include "genesis/tree/drawing/rectangular_layout.hpp"
#include "genesis/utils/formats/nexus/block.hpp"
#include "genesis/utils/formats/nexus/document.hpp"
#include "genesis/utils/formats/nexus/taxa.hpp"
#include "genesis/utils/formats/nexus/trees.hpp"
#include "genesis/utils/formats/nexus/writer.hpp"
#include "genesis/utils/core/fs.hpp"
#include "genesis/utils/core/std.hpp"
#include "genesis/utils/io/output_stream.hpp"
#include "genesis/utils/tools/color/norm_linear.hpp"
#include <fstream>
#include <memory>
#include <stdexcept>

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Namespaces
	genesis
	Container namespace for all symbols of genesis in order to keep them separate when used as a library.
	genesis::tree

Functions
utils::SvgDocument	get_color_tree_svg_doc_ (CommonTree const &tree, LayoutParameters const &params, std::vector< utils::Color > const &color_per_branch)
void	write_color_tree_to_nexus_file (CommonTree const &tree, std::vector< double > const &value_per_branch, utils::ColorMap const &color_map, utils::ColorNormalization const &color_norm, std::string const &nexus_filename)
void	write_color_tree_to_nexus_file (CommonTree const &tree, std::vector< utils::Color > const &color_per_branch, std::string const &nexus_filename)
void	write_color_tree_to_phyloxml_file (CommonTree const &tree, std::vector< double > const &value_per_branch, utils::ColorMap const &color_map, utils::ColorNormalization const &color_norm, std::string const &phyloxml_filename)
void	write_color_tree_to_phyloxml_file (CommonTree const &tree, std::vector< utils::Color > const &color_per_branch, std::string const &phyloxml_filename)
void	write_color_tree_to_svg_file (CommonTree const &tree, LayoutParameters const &params, std::vector< double > const &value_per_branch, utils::ColorMap const &color_map, utils::ColorNormalization const &color_norm, std::string const &svg_filename)
void	write_color_tree_to_svg_file (CommonTree const &tree, LayoutParameters const &params, std::vector< utils::Color > const &color_per_branch, std::string const &svg_filename)
void	write_color_tree_to_svg_file (CommonTree const &tree, LayoutParameters const &params, std::vector< utils::Color > const &color_per_branch, std::vector< utils::Color > const &color_list, std::vector< std::string > const &color_labels, std::string const &svg_filename)
void	write_color_tree_to_svg_file (CommonTree const &tree, LayoutParameters const &params, std::vector< utils::Color > const &color_per_branch, utils::ColorMap const &color_map, utils::ColorNormalization const &color_norm, std::string const &svg_filename)
void	write_tree_to_newick_file (CommonTree const &tree, std::string const &newick_filename)
	Write a newick file containing a tree. More...
void	write_tree_to_nexus_file (CommonTree const &tree, std::string const &nexus_filename)
	Write a nexus file containing a tree. More...
void	write_tree_to_phyloxml_file (CommonTree const &tree, std::string const &phyloxml_filename)
	Write a phyloxml file containing a tree. More...
void	write_tree_to_svg_file (CommonTree const &tree, LayoutParameters const &params, std::string const &svg_filename)