Adjacency

Trial Use

May change in future releases. See Maturity Model.

Computational Definition

The Adjacency class represents the adjoining of the end of a sequence with the beginning of an adjacent sequence, potentially with an intervening linker sequence.

GA4GH Digest

Prefix	Inherent
AJ	[‘adjoinedSequences’, ‘linker’, ‘type’]

Information Model

Some Adjacency attributes are inherited from Variation.

Field	Flags	Type	Limits	Description
id		string	0..1	The ‘logical’ identifier of the Entity in the system of record, e.g. a UUID. This ‘id’ is unique within a given system, but may or may not be globally unique outside the system. It is used within a system to reference an object from another.
type		string	1..1	MUST be “Adjacency”.
name		string	0..1	A primary name for the entity.
description		string	0..1	A free-text description of the Entity.
aliases	⋮	string	0..m	Alternative name(s) for the Entity.
extensions	⋮	Extension	0..m	A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.
digest		string	0..1	A sha512t24u digest created using the VRS Computed Identifier algorithm.
expressions	⋮	Expression	0..m
adjoinedSequences	↓	iriReference | Location	2..2	The terminal sequence or pair of adjoined sequences that defines in the adjacency.
linker		SequenceExpression	0..1	The sequence found between adjoined sequences.
homology	D	boolean	0..1	A flag indicating if coordinate ambiguity in the adjoined sequences is from sequence homology (true) or other uncertainty, such as instrument ambiguity (false).

Inherits: MolecularVariation

Used in: Traversal Block, Variant Molecular Consequence Proposition

Note

This class is imported from VRS. Refer to the upstream specification for its authoritative, full definition.