JunctionVcfWriter.hpp File Reference

This file contains procedure for writing junctions to vcf file. More...

#include "cgatools/core.hpp"
#include "cgatools/junctions/Junction.hpp"
#include "cgatools/junctions/JunctionCompare.hpp"
#include <string>
#include <vector>
#include <map>
#include <set>
#include <boost/shared_ptr.hpp>

Go to the source code of this file.

Classes
struct	cgatools::junctions::JunctionRefSide
	One junction side, sortable in the reference order. More...
class	cgatools::junctions::JunctionVcfWriter
Namespaces
namespace	cgatools
	Namespace containing the libcgatools API.
Typedefs
typedef std::map< std::string, junctions::JunctionRefs >	cgatools::junctions::JunctionCompatMap
	Map from a junction ID in a single file to all compatible junctions in all other files.
typedef std::vector < JunctionCompatMap >	cgatools::junctions::JunctionCompatMapPerFile
	For each file, the per-ID map to compatible junctions.
typedef std::set< JunctionRef >	cgatools::junctions::JunctionRefSet
	Data type to keep track of junctions.

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Detailed Description

This file contains procedure for writing junctions to vcf file.