Alphabet.cuh File Reference

#include <cuda/std/__bit/integral.h>
#include <cuda_runtime.h>
#include <concepts>
#include <cstdint>

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Classes
struct	cusbf::DnaAlphabet
	An alphabet for encoding DNA sequences, consisting of the symbols A, C, G, and T. More...
struct	cusbf::DnaTripletAlphabet
	An alphabet that encodes non-overlapping DNA triplets as single symbols. More...
struct	cusbf::ProteinAlphabet
	An alphabet for encoding protein sequences, consisting of the 20 standard amino acids plus common ambiguous and rare residue symbols: More...

Namespaces
namespace	cusbf
namespace	cusbf::detail

Concepts
concept	cusbf::Alphabet
	Concept for alphabet-like types used to encode bytes as symbol indices.

Functions
template<typename T >
consteval uint64_t	cusbf::detail::validByteCount ()
template<typename T >
consteval bool	cusbf::detail::separatorPositionAlwaysEncodesInvalid (char *input, uint64_t separatorPosition, uint64_t index)
	Recursively tests whether placing the separator byte at any position in an input of valid bytes always results in an invalid encoding.
template<typename T >
consteval bool	cusbf::detail::separatorByteAlwaysEncodesInvalid ()
	Tests that for every position in the input, placing the separator byte at that position always results in an invalid encoding.