infix.h File Reference

#include <nvbio/strings/string_set.h>

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Classes
struct	nvbio::InfixCore< StringType, CoordType, CoordDim >
struct	nvbio::InfixCore< StringType, CoordType, 2u >
struct	nvbio::InfixCore< StringType, CoordType, 4u >
struct	nvbio::Infix< StringType, CoordType >
struct	nvbio::InfixSetCore< SequenceType, InfixIterator, CoordDim >
struct	nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >
struct	nvbio::InfixSetCore< SequenceType, InfixIterator, 4u >
struct	nvbio::InfixSet< SequenceType, InfixIterator >

Namespaces
	nvbio
	Define a vector_view POD type and plain_view() for std::vector.

Typedefs
typedef uint32_2	nvbio::string_infix_coord_type
typedef uint64_2	nvbio::long_string_infix_coord_type
typedef uint32_4	nvbio::string_set_infix_coord_type
typedef uint64_4	nvbio::long_string_set_infix_coord_type

Functions
template<typename StringType , typename CoordType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE Infix < StringType, CoordType >	nvbio::make_infix (const StringType string, const CoordType coords)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::infix_begin (const uint32_2 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::infix_end (const uint32_2 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::length (const uint32_2 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint64	nvbio::infix_begin (const uint64_2 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint64	nvbio::infix_end (const uint64_2 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint64	nvbio::length (const uint64_2 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::infix_begin (const uint32_4 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::infix_end (const uint32_4 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::length (const uint32_4 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint64	nvbio::infix_begin (const uint64_4 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint64	nvbio::infix_end (const uint64_4 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint64	nvbio::length (const uint64_4 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::string_id (const uint32_4 &infix)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint64	nvbio::string_id (const uint64_4 &infix)
template<typename StringType , typename CoordType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE Infix < StringType, CoordType > ::index_type	nvbio::infix_begin (const Infix< StringType, CoordType > &infix)
template<typename StringType , typename CoordType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE Infix < StringType, CoordType > ::index_type	nvbio::infix_end (const Infix< StringType, CoordType > &infix)
template<typename StringType , typename CoordType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::string_id (const InfixCore< StringType, CoordType, 4u > &infix)
template<typename StringType , typename CoordType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::length (const Infix< StringType, CoordType > &infix)