AnnotationStoreElement

Class

Represents an annotation of a contig feature.

AnnotationStoreElement<>

AnnotationStoreElement<TPos[, TSpec]>

Include Headers

seqan/store.h

Parameters

TPos	Type to store (gap-space) positions.
TSpec	The specialization type. Default: void

Remarks

Value type of the annotationStore string. The id of an annotation (aka annotationId) is not stored explicitly, as it is implicitly given by the position in the annotationStore.

Typedefs

TId	Type of annotationId and contigId.
TPos	Type of the beginPos and endPos members.
TValues	StringSet type of the values member.

Data Members

beginPos	Begin position of the annotation in gap-space.
contigId	Refers to the contig in the contigStore the annotation is part of.
endPos	End position of the annotation in gap-space. If endPos < beginPos, the annotated feature is located on the reverse strand, where beginPos and endPos are the corresponding positions on the forward strand.
INVALID_ID	Constant to represent an invalid id.
INVALID_POS	Constant to represent an invalid position.
lastChildId	The id of the rightmost child annotation.
nextSiblingId	The id of the right sibling annotation.
parentId	The id of the parent annotation.
typeId	Refers to an entry in the annotationTypeStore. There are some type ids predefined for commonly used types, e.g. ANNO_GENE. See Predefined Annotation Types.
values	StringSet that stores additional annotation values addressed by keyId. The GFF/GTF file format allows to define user-specific key-value pairs. The set of all keys addressed by keyId are stored in the annotationKeyStore.

Member Functions

AnnotationStoreElement

Constructor

SeqAn - Sequence Analysis Library - www.seqan.de