Slot: complete_sequences

To be considered complete, the procedure used for library construction MUST generate sequences that 1) include the first V gene codon that encodes the mature polypeptide chain (i.e. after the leader sequence) and 2) include the last complete codon of the J gene (i.e. 1 bp 5' of the J->C splice site) and 3) provide sequence information for all positions between 1) and 2). To be considered complete & untemplated, the sections of the sequences defined in points 1) to 3) of the previous sentence MUST be untemplated, i.e. MUST NOT overlap with the primers used in library preparation. mixed should only be used if the procedure used for library construction will likely produce multiple categories of sequences in the given experiment. It SHOULD NOT be used as a replacement of a NULL value.

URI: https://github.com/vdjserver/vdjserver-airr-schema/complete_sequences

Applicable Classes

Name	Description	Modifies Slot
NucleicAcidProcessing	Default NucleicAcidProcessing description	no
SampleProcessing	Default SampleProcessing description	no

Properties

Type and Range

Property	Value
Range	CompleteSequencesEnum
Domain Of	NucleicAcidProcessing, SampleProcessing

Cardinality and Requirements

Property	Value

Identifier and Mapping Information

Annotations

property	value
nullable	False

Schema Source

• from schema: https://github.com/vdjserver/vdjserver-airr-schema

Mappings

Mapping Type	Mapped Value
self	https://github.com/vdjserver/vdjserver-airr-schema/complete_sequences
native	https://github.com/vdjserver/vdjserver-airr-schema/complete_sequences

LinkML Source

name: complete_sequences
annotations:
  nullable:
    tag: nullable
    value: false
description: To be considered `complete`, the procedure used for library construction
  MUST generate sequences that 1) include the first V gene codon that encodes the
  mature polypeptide chain (i.e. after the leader sequence) and 2) include the last
  complete codon of the J gene (i.e. 1 bp 5' of the J->C splice site) and 3) provide
  sequence information for all positions between 1) and 2). To be considered `complete
  & untemplated`, the sections of the sequences defined in points 1) to 3) of the
  previous sentence MUST be untemplated, i.e. MUST NOT overlap with the primers used
  in library preparation. `mixed` should only be used if the procedure used for library
  construction will likely produce multiple categories of sequences in the given experiment.
  It SHOULD NOT be used as a replacement of a NULL value.
from_schema: https://github.com/vdjserver/vdjserver-airr-schema
rank: 1000
domain_of:
- NucleicAcidProcessing
- SampleProcessing
range: CompleteSequencesEnum