cgatools::variants::Superlocus Class Reference

The Superlocus class. More...

#include <Superlocus.hpp>

List of all members.

Public Member Functions
	Superlocus ()
	Constructs an empty Superlocus.
void	buildPhasedHypotheses (std::vector< std::vector< PhasedHypothesis > > &hypotheses, size_t maxHypothesisCount, bool useHapLinks) const
	Returns all the hapLink-consistent phasings of this Superlocus.
const reference::Range &	getRange () const
	Returns the reference range for this Superlocus.
uint32_t	getId () const
	Returns a numeric identifier for the Superlocus.
std::pair< std::deque< Locus > ::const_iterator, std::deque < Locus >::const_iterator >	getLoci (size_t fileOffset) const
	Returns the set of Locus for one file of this Superlocus.
Static Public Member Functions
static uint32_t	extendRightByPrefixMatching (const reference::CrrFile &crr, const reference::Location &loc, const std::string &sequence)
static uint32_t	extendLeftBySuffixMatching (const reference::CrrFile &crr, const reference::Location &loc, const std::string &sequence)
Friends
class	SuperlocusIterator

---

Detailed Description

The Superlocus class.

Describes a Locus list for a set of files that must be considered together in context.

---

Member Function Documentation

std::pair<std::deque<Locus>::const_iterator, std::deque<Locus>::const_iterator> cgatools::variants::Superlocus::getLoci

(

size_t

fileOffset

)

const

Returns the set of Locus for one file of this Superlocus.

---

The documentation for this class was generated from the following file:

• Superlocus.hpp