Class
AlignedReadStoreElement
Represents an alignment between read and contig.
AlignedReadStoreElement<>
AlignedReadStoreElement<TPos[, TGapAnchor[, TSpec]]>
Parameters
TPos
Type to store gap-space positions.
TGapAnchor
Type of a read gap anchor.
Types: GapAnchor
TSpec
The specialization type.
Default: void
Remarks
Value type of the alignedReadStore string.
Typedefs
TGapAnchorsType of the gaps member.
TPosType of the beginPos and endPos members.
TSpecThe specialization type.
Data Members
beginPosBegin position of the alignment in gap-space.
contigIdRefers to the contig in the contigStore the read is aligned with.
endPosEnd position of the alignment in gap-space.
gapsString of read gap anchors. Can be used to create a Spec.AnchorGaps alignment row.
idThe alignment id refers to associated alignment information in alignQualityStore or alignedReadTagStore.
INVALID_IDConstant to represent an invalid id.
pairMatchIdTwo read alignments having the same pairMatchId form a valid pair match. If INVALID_ID the read is either not paired or could not be aligned as part of a pair match.
readIdRefers to the aligned read in the readStore.
Member Functions
AlignedReadStoreElementConstructor
SeqAn - Sequence Analysis Library - www.seqan.de
 

Page built @2011/02/08 21:36:59