sequence_encoder.cpp File Reference

#include <nvbio/io/sequence/sequence_encoder.h>
#include <stdio.h>

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Classes
struct	nvbio::io::sequence_string< ALPHABET, FLAGS >
struct	nvbio::io::SequenceDataEncoderImpl< SEQUENCE_ALPHABET >

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

Functions
template<Alphabet ALPHABET, QualityEncoding quality_encoding, typename sequence_type >
void	nvbio::io::encode (const sequence_type sequence, typename SequenceDataEdit< ALPHABET, SequenceDataView >::sequence_stream_type stream, char *qual_stream)
template<Alphabet ALPHABET, typename sequence_type >
void	nvbio::io::encode (const QualityEncoding quality_encoding, const sequence_type sequence, typename SequenceDataEdit< ALPHABET, SequenceDataView >::sequence_stream_type stream, char *qual_stream)
template<Alphabet ALPHABET>
void	nvbio::io::encode (const SequenceDataEncoder::StrandOp conversion_flags, const QualityEncoding quality_encoding, const uint32 sequence_len, const uint8 *sequence, const uint8 *quality, typename SequenceDataEdit< ALPHABET, SequenceDataView >::sequence_stream_type stream, char *qual_stream)
SequenceDataEncoder *	nvbio::io::create_encoder (const Alphabet alphabet, SequenceDataHost *data)
int	nvbio::io::next (const Alphabet alphabet, SequenceDataHost *data, SequenceDataStream *stream, const uint32 batch_size, const uint32 batch_bps)
int	nvbio::io::append (const Alphabet alphabet, SequenceDataHost *data, SequenceDataStream *stream, const uint32 batch_size, const uint32 batch_bps)
int	nvbio::io::skip (SequenceDataStream *stream, const uint32 batch_size, const uint32 batch_bps)