cusbf::detail::SequenceKmerInput< Config > Struct Template Reference

Device-side view of an encoded sequence for k-mer / s-mer counting. More...

Collaboration diagram for cusbf::detail::SequenceKmerInput< Config >:

Public Member Functions
constexpr __host__ __device__ uint64_t	kmerCount () const
	Number of k-mer windows in sequence.
constexpr __host__ __device__ uint64_t	smerCount () const
	Number of s-mer windows in sequence.

Public Attributes
device_span< const char >	sequence
	Encoded sequence bytes (Config::symbolWidth per symbol).

Detailed Description

template<typename Config>
struct cusbf::detail::SequenceKmerInput< Config >

Device-side view of an encoded sequence for k-mer / s-mer counting.

Definition at line 22 of file sequence_kmer.cuh.

Member Function Documentation

kmerCount()

template<typename Config >

constexpr __host__ __device__ uint64_t cusbf::detail::SequenceKmerInput< Config >::kmerCount ( ) const

inlineconstexpr

Number of k-mer windows in sequence.

Definition at line 27 of file sequence_kmer.cuh.

                                                                           {
        const uint64_t symbols = sequence.size() / Config::symbolWidth;
        return symbols < Config::k ? 0 : (symbols - Config::k + 1);
    }

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smerCount()

template<typename Config >

constexpr __host__ __device__ uint64_t cusbf::detail::SequenceKmerInput< Config >::smerCount ( ) const

inlineconstexpr

Number of s-mer windows in sequence.

Definition at line 33 of file sequence_kmer.cuh.

                                                                           {
        const uint64_t symbols = sequence.size() / Config::symbolWidth;
        return symbols < Config::s ? 0 : (symbols - Config::s + 1);
    }

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Member Data Documentation

sequence

template<typename Config >

device_span<const char> cusbf::detail::SequenceKmerInput< Config >::sequence

Encoded sequence bytes (Config::symbolWidth per symbol).

Definition at line 24 of file sequence_kmer.cuh.

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

• sequence_kmer.cuh