alphabet.h File Reference

#include <nvbio/basic/types.h>
#include <nvbio/basic/transform_iterator.h>
#include <nvbio/strings/alphabet_inl.h>

Go to the source code of this file.

Classes
struct	nvbio::AlphabetTraits< ALPHABET >
struct	nvbio::AlphabetTraits< DNA >
struct	nvbio::AlphabetTraits< DNA_N >
struct	nvbio::AlphabetTraits< DNA_IUPAC >
struct	nvbio::AlphabetTraits< PROTEIN >
struct	nvbio::AlphabetTraits< RNA >
struct	nvbio::AlphabetTraits< RNA_N >
struct	nvbio::AlphabetTraits< ASCII >
struct	nvbio::to_char_functor< ALPHABET >
struct	nvbio::from_char_functor< ALPHABET >

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

Enumerations
enum	nvbio::Alphabet {   nvbio::DNA = 0u, nvbio::DNA_N = 1u, nvbio::DNA_IUPAC = 2u, nvbio::PROTEIN = 3u,   nvbio::RNA = 4u, nvbio::RNA_N = 5u, nvbio::ASCII = 6u }

Functions
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	nvbio::bits_per_symbol (const Alphabet alphabet)
template<Alphabet ALPHABET>
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE char	nvbio::to_char (const uint8 c)
template<Alphabet ALPHABET>
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint8	nvbio::from_char (const char c)
template<Alphabet ALPHABET, typename SymbolIterator >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	nvbio::to_string (const SymbolIterator begin, const uint32 n, char *string)
template<Alphabet ALPHABET, typename SymbolIterator >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	nvbio::to_string (const SymbolIterator begin, const SymbolIterator end, char *string)
template<Alphabet ALPHABET, typename SymbolIterator >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	nvbio::from_string (const char *begin, const char *end, SymbolIterator symbols)
template<Alphabet ALPHABET, typename SymbolIterator >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	nvbio::from_string (const char *begin, SymbolIterator symbols)
template<Alphabet ALPHABET, typename Iterator >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE transform_iterator< Iterator, to_char_functor< ALPHABET > >	nvbio::to_string (Iterator it)
template<Alphabet ALPHABET, typename Iterator >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE transform_iterator< Iterator, from_char_functor< ALPHABET > >	nvbio::from_string (Iterator it)