tree/drawing/functions.hpp File Reference

#include "genesis/tree/common_tree/tree.hpp"
#include "genesis/tree/drawing/layout_base.hpp"
#include "genesis/utils/color/color.hpp"
#include "genesis/utils/color/map.hpp"
#include "genesis/utils/color/normalization.hpp"
#include "genesis/utils/formats/svg/svg.hpp"
#include <string>
#include <vector>

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Classes
struct	LayoutParameters
	Collection of params for simple tree to svg wrapper functions. More...

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_document (CommonTree const &tree, LayoutParameters const &params, std::vector< double > const &value_per_branch, utils::ColorMap const &color_map, utils::ColorNormalization const &color_norm)
utils::SvgDocument	get_color_tree_svg_document (CommonTree const &tree, LayoutParameters const &params, std::vector< utils::Color > const &color_per_branch)
utils::SvgDocument	get_color_tree_svg_document (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)
utils::SvgDocument	get_color_tree_svg_document (CommonTree const &tree, LayoutParameters const &params, std::vector< utils::Color > const &color_per_branch, utils::ColorMap const &color_map, utils::ColorNormalization const &color_norm)
utils::SvgDocument	get_color_tree_svg_document (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::vector< utils::SvgGroup > const &node_shapes, std::vector< utils::SvgGroup > const &edge_shapes)
utils::SvgDocument	get_tree_svg_document (CommonTree const &tree, LayoutParameters const &params)
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_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::vector< utils::SvgGroup > const &node_shapes, std::vector< utils::SvgGroup > const &edge_shapes, 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)