Struct noodles_cram::record::Builder

pub struct Builder { /* private fields */ }

A CRAM record builder.

Implementations

impl Builder

pub fn set_id(self, id: i64) -> Self

Sets the CRAM record ID.

pub fn set_bam_flags(self, bam_flags: Flags) -> Self

Sets the BAM flags.

pub fn set_flags(self, flags: Flags) -> Self

Sets the CRAM flags.

pub fn set_reference_sequence_id(self, reference_sequence_id: usize) -> Self

Sets the reference sequence ID.

pub fn set_read_length(self, read_length: usize) -> Self

Sets the read length.

pub fn set_alignment_start(self, alignment_start: Position) -> Self

Sets the alignment start position.

pub fn set_read_group_id(self, read_group_id: usize) -> Self

Sets the read group ID.

pub fn set_read_name(self, read_name: ReadName) -> Self

Sets the read name.

pub fn set_next_mate_flags(self, next_mate_flags: NextMateFlags) -> Self

Sets the next mate flags.

pub fn set_next_fragment_reference_sequence_id(
    self,
    next_fragment_reference_sequence_id: usize
) -> Self

Sets the reference sequence ID of the next fragment.

pub fn set_next_mate_alignment_start(
    self,
    next_mate_alignment_start: Position
) -> Self

Sets the alignment start position of the next mate.

pub fn set_template_size(self, template_size: i32) -> Self

Sets the template size.

pub fn set_distance_to_next_fragment(
    self,
    distance_to_next_fragment: usize
) -> Self

Sets the distance to the next fragment.

pub fn set_tags(self, tags: Data) -> Self

Sets the tag dictionary.

pub fn add_tag(self, tag: Field) -> Self

Adds a tag to the tag dictionary.

pub fn set_bases(self, bases: Sequence) -> Self

Sets the read bases.

pub fn add_base(self, base: Base) -> Self

Adds a base to the read bases.

pub fn set_features(self, features: Features) -> Self

Sets the read features.

pub fn add_feature(self, feature: Feature) -> Self

Adds a read feature.

pub fn set_mapping_quality(self, mapping_quality: MappingQuality) -> Self

Sets the mapping quality.

pub fn set_quality_scores(self, quality_scores: QualityScores) -> Self

Sets the per-base quality scores.

pub fn add_quality_score(self, quality_score: Score) -> Self

Adds a quality score.

pub fn build(self) -> Record

Builds a CRAM record.

Trait Implementations

impl Default for Builder

fn default() -> Self

Returns the “default value” for a type.