SamReader

class SamReader : IBamSamReader {

this(string filename);

bio.std.hts.sam.header.SamHeader header();

const(bio.std.hts.bam.referenceinfo.ReferenceSequenceInfo)[] reference_sequences();

bool hasReference(string reference);

bio.std.hts.bam.reference.ReferenceSequence opIndex(string ref_name);

void assumeSequentialProcessing();

std.range.InputRange!(bio.std.hts.bam.read.BamRead) allReads();

string filename();

}

Constructors

this this(string filename)

Members

Functions

allReads std.range.InputRange!(bio.std.hts.bam.read.BamRead) allReads()
assumeSequentialProcessing void assumeSequentialProcessing()
filename string filename(): Filename
hasReference bool hasReference(string reference)
header bio.std.hts.sam.header.SamHeader header()
opIndex bio.std.hts.bam.reference.ReferenceSequence opIndex(string ref_name)
reads auto reads(): Reads in SAM file.
reference_sequences const(bio.std.hts.bam.referenceinfo.ReferenceSequenceInfo)[] reference_sequences()

Inherited Members

From IBamSamReader

header bio.std.hts.sam.header.SamHeader header(): SAM header
reference_sequences const(bio.std.hts.bam.referenceinfo.ReferenceSequenceInfo)[] reference_sequences(): Information about reference sequences
allReads std.range.InputRange!(bio.std.hts.bam.read.BamRead) allReads(): All reads in the file
filename string filename(): Filename
assumeSequentialProcessing void assumeSequentialProcessing()

Meta

Source

See Implementation

bio std hts sam reader aliases

_LineRange

classes

SamReader

functions

_parseSamRecord