ReferenceSequence

struct ReferenceSequence {

}

Constructors

this this(RandomAccessManager manager, int ref_id, ReferenceSequenceInfo info): Undocumented in source.

endVirtualOffset bio.core.bgzf.virtualoffset.VirtualOffset endVirtualOffset(): Virtual offset before which reads, aligned to this reference, stop. If there are no reads aligned to this reference, returns virtual offset of the EOF block if it's presented, or the end of file.
firstPosition int firstPosition(): First position on the reference overlapped by reads (0-based)
Returns -1 if set of reads is empty.
id int id(): Reference ID
lastPosition int lastPosition(): Last position on the reference overlapped by reads (0-based)
Returns -1 if set of reads is empty.
length int length(): Length in base pairs
name string name(): Name
opSlice auto opSlice(uint start, uint end): Get alignments overlapping [start, end) region.
Coordinates are 0-based.
opSlice auto opSlice(): Get all alignments for this reference
startVirtualOffset bio.core.bgzf.virtualoffset.VirtualOffset startVirtualOffset(): Virtual offset at which reads, aligned to this reference, start in BAM file. If there are no reads aligned to this reference, returns virtual offset of the EOF block if it's presented, or the end of file.