cgatools::junctions::FullGenomeJunctionComparator Class Reference

List of all members.

Public Types

typedef std::vector< Junctions > JunctionsArray
typedef std::vector< JunctionItsJunctionsItsArray

Public Member Functions

 FullGenomeJunctionComparator (uint32_t distanceTolerance, const std::vector< size_t > &scoreThresholds, std::ostream &outCommonJunctionsStream)
double getCompatibility (const Junction &j0, const Junction &j1) const
bool isSideCompatible (const Junction &j0, const Junction &j1, int side) const
void compare (const JunctionsArray &junctions) const
void compareBySide (const JunctionsArray &junctions, int firstSide, JunctionIts &oneSideCompatible, JunctionIts &twoSidesCompatible, JunctionIts &twoSidesIncompatible) const
void mergeResults (JunctionsItsArray &input, JunctionIts &output) const
void printResults (const JunctionIts &junctionIts, std::ostream &out) const

Static Public Attributes

static const char SEPARATOR = '\t'

Protected Attributes

uint32_t distanceTolerance_
std::vector< size_t > scoreThresholds_
std::ostream & outCommonJunctionsStream_

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