QualityValues

#include <pbbam/QualityValues.h>

class PacBio::BAM::QualityValues

The QualityValues class represents a sequence of FASTQ-compatible quality values. See QualityValue documentation for more details.

Inherits from std::vector< QualityValue >

Constructors & Related Methods

QualityValues()

Default constructor - creates an empty QualityValues object.

QualityValues(const std::string &fastqString)

Creates a QualityValues object from a FASTQ-encoded string.

Parameters

• fastqString: FASTQ-encoded string

QualityValues(const std::vector<QualityValue> &quals)

Creates a QualityValues object from a vector of QualityValue elements.

Parameters

• quals: vector of QualityValue elements

QualityValues(std::vector<QualityValue> &&quals)

Creates a QualityValues object from a vector of QualityValue elements.

Parameters

• quals: vector of QualityValue elements

QualityValues(const std::vector<uint8_t> &quals)

Creates a QualityValues object from a vector of (numeric) quality values.

Parameters

• quals: vector of quality value numbers

QualityValues(const std::vector<uint8_t>::const_iterator first, const std::vector<uint8_t>::const_iterator last)

Creates a QualityValues object from the contents of the range: [first, last)

Parameters

• first: input iterator, whose element is a numeric quality
• last: input iterator, whose element is a numeric quality

QualityValues(const QualityValues::const_iterator first, const QualityValues::const_iterator last)

Creates a QualityValues object from the contents of the range: [first, last)

Parameters

• first: input iterator, whose element is a QualityValue
• last: input iterator, whose element is a QualityValue

QualityValues(const QualityValues &other)

Copy constructor.

QualityValues(QualityValues &&other)

Move constructor.

QualityValues &operator=(const QualityValues &other)

Copy assignment operator.

Parameters

• other: QualityValues object

QualityValues &operator=(QualityValues &&other)

Move assignment operator.

Parameters

• other: QualityValues object

QualityValues &operator=(const std::vector<QualityValue> &quals)

Copy assignment operator.

Parameters

• quals: vector of QualityValue elements

QualityValues &operator=(std::vector<QualityValue> &&quals)

Move assignment operator.

Parameters

• quals: vector of QualityValue elements

~QualityValues()

Destructor.

Comparison Operators

bool operator==(const std::string &other) const

bool operator!=(const std::string &other) const

Iterators

std::vector<QualityValue>::const_iterator cbegin() const

Return

a const_iterator to the beginning of the sequence

std::vector<QualityValue>::const_iterator cend() const

Return

a const_iterator to the element following the last element

std::vector<QualityValue>::const_iterator begin() const

Return

a const_iterator to the beginning of the sequence

std::vector<QualityValue>::const_iterator end() const

Return

a const_iterator to the element following the last element

std::vector<QualityValue>::iterator begin()

Return

an iterator to the beginning of the sequence

std::vector<QualityValue>::iterator end()

Return

an iterator to the element following the last element

Conversion Methods

std::string Fastq() const

Return

the FASTQ-encoded string for this sequence of quality values

Public Static Functions

static QualityValues FromFastq(const std::string &fastq)

Creates a QualityValues object from a FASTQ-encoded string.

Return

corresponding QualityValues object

Parameters

• fastq: FASTQ-encoded string