#include <iostream>
#include <cctype>
#include <vector>
#include "../handle.hpp"

Classes
struct	vg::algorithms::GFAIDMapInfo

class	vg::algorithms::GFAParser

struct	vg::algorithms::GFAFormatError
	This exception will be thrown if the GFA data is not acceptable. More...

struct	vg::algorithms::GFADuplicatePathError

Functions
void	vg::algorithms::gfa_to_handle_graph (const string &filename, MutableHandleGraph graph, GFAIDMapInfo translation)

void	vg::algorithms::gfa_to_handle_graph (const string &filename, MutableHandleGraph *graph, const string &translation_filename)
	Overload which serializes its translation to a file internally. More...

void	vg::algorithms::gfa_to_handle_graph (istream &in, MutableHandleGraph graph, GFAIDMapInfo translation=nullptr)
	Load a GFA from a stream (assumed not to be seekable or reopenable) into a HandleGraph. More...

void	vg::algorithms::gfa_to_path_handle_graph (const string &filename, MutablePathMutableHandleGraph graph, GFAIDMapInfo translation=nullptr, int64_t max_rgfa_rank=numeric_limits< int64_t >::max(), unordered_set< PathSense > *ignore_sense=nullptr)
	Same as gfa_to_handle_graph but also adds path elements from the GFA to the graph. More...

void	vg::algorithms::gfa_to_path_handle_graph (const string &filename, MutablePathMutableHandleGraph graph, int64_t max_rgfa_rank, const string &translation_filename, unordered_set< PathSense > ignore_sense=nullptr)
	Overload which serializes its translation to a file internally. More...

void	vg::algorithms::gfa_to_path_handle_graph (istream &in, MutablePathMutableHandleGraph graph, GFAIDMapInfo translation=nullptr, int64_t max_rgfa_rank=numeric_limits< int64_t >::max(), unordered_set< PathSense > *ignore_sense=nullptr)
	Load a GFA from a stream (assumed not to be seekable or reopenable) into a PathHandleGraph. More...

Detailed Description

Defines algorithms for copying data from GFA files into handle graphs

Classes