Class: SequencingData

URI: ak_schema:SequencingData

classDiagram class SequencingData click SequencingData href "../SequencingData" AIRRStandards <|-- SequencingData click AIRRStandards href "../AIRRStandards" SequencingData : file_type SequencingData --> "0..1" FileTypeEnum : file_type click FileTypeEnum href "../FileTypeEnum" SequencingData : filename SequencingData : index_filename SequencingData : index_length SequencingData : paired_filename SequencingData : paired_read_direction SequencingData --> "0..1" PairedReadDirectionEnum : paired_read_direction click PairedReadDirectionEnum href "../PairedReadDirectionEnum" SequencingData : paired_read_length SequencingData : read_direction SequencingData --> "0..1" ReadDirectionEnum : read_direction click ReadDirectionEnum href "../ReadDirectionEnum" SequencingData : read_length SequencingData : sequencing_data_id

Inheritance

AIRRStandards
- SequencingData

Slots

Name	Cardinality and Range	Description	Inheritance
sequencing_data_id	0..1 String	Persistent identifier of raw data stored in an archive (e	direct
file_type	0..1 FileTypeEnum	File format for the raw reads or sequences	direct
filename	0..1 String	File name for the raw reads or sequences	direct
read_direction	0..1 ReadDirectionEnum	Read direction for the raw reads or sequences	direct
read_length	0..1 Integer	Read length in bases for the first file in paired-read sequencing	direct
paired_filename	0..1 String	File name for the second file in paired-read sequencing	direct
paired_read_direction	0..1 PairedReadDirectionEnum	Read direction for the second file in paired-read sequencing	direct
paired_read_length	0..1 Integer	Read length in bases for the second file in paired-read sequencing	direct
index_filename	0..1 String	File name for the index file	direct
index_length	0..1 Integer	Read length in bases for the index file	direct

Usages

used by	used in	type	used
AIRRSequencingAssay	sequencing_files	range	SequencingData
SequencingRun	sequencing_files	range	SequencingData
SampleProcessing	sequencing_files	range	SequencingData

Identifier and Mapping Information

Schema Source

from schema: https://github.com/airr-knowledge/ak-schema

Mappings

Mapping Type	Mapped Value
self	ak_schema:SequencingData
native	ak_schema:SequencingData

LinkML Source

Direct

name: SequencingData
from_schema: https://github.com/airr-knowledge/ak-schema
is_a: AIRRStandards
slots:
- sequencing_data_id
- file_type
- filename
- read_direction
- read_length
- paired_filename
- paired_read_direction
- paired_read_length
- index_filename
- index_length

Induced

name: SequencingData
from_schema: https://github.com/airr-knowledge/ak-schema
is_a: AIRRStandards
attributes:
  sequencing_data_id:
    name: sequencing_data_id
    annotations:
      nullable:
        tag: nullable
        value: true
    description: Persistent identifier of raw data stored in an archive (e.g. INSDC
      run ID). Data archive should  be identified in the CURIE prefix.
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: sequencing_data_id
    owner: SequencingData
    domain_of:
    - SequencingData
    range: string
  file_type:
    name: file_type
    annotations:
      nullable:
        tag: nullable
        value: true
    description: File format for the raw reads or sequences
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    slot_uri: rdf:type
    alias: file_type
    owner: SequencingData
    domain_of:
    - SequencingData
    range: FileTypeEnum
  filename:
    name: filename
    annotations:
      nullable:
        tag: nullable
        value: true
    description: File name for the raw reads or sequences. The first file in paired-read
      sequencing.
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: filename
    owner: SequencingData
    domain_of:
    - SequencingData
    range: string
  read_direction:
    name: read_direction
    annotations:
      nullable:
        tag: nullable
        value: true
    description: Read direction for the raw reads or sequences. The first file in
      paired-read sequencing.
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: read_direction
    owner: SequencingData
    domain_of:
    - SequencingData
    range: ReadDirectionEnum
  read_length:
    name: read_length
    annotations:
      nullable:
        tag: nullable
        value: true
    description: Read length in bases for the first file in paired-read sequencing
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: read_length
    owner: SequencingData
    domain_of:
    - SequencingData
    range: integer
  paired_filename:
    name: paired_filename
    annotations:
      nullable:
        tag: nullable
        value: true
    description: File name for the second file in paired-read sequencing
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: paired_filename
    owner: SequencingData
    domain_of:
    - SequencingData
    range: string
  paired_read_direction:
    name: paired_read_direction
    annotations:
      nullable:
        tag: nullable
        value: true
    description: Read direction for the second file in paired-read sequencing
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: paired_read_direction
    owner: SequencingData
    domain_of:
    - SequencingData
    range: PairedReadDirectionEnum
  paired_read_length:
    name: paired_read_length
    annotations:
      nullable:
        tag: nullable
        value: true
    description: Read length in bases for the second file in paired-read sequencing
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: paired_read_length
    owner: SequencingData
    domain_of:
    - SequencingData
    range: integer
  index_filename:
    name: index_filename
    annotations:
      nullable:
        tag: nullable
        value: true
    description: File name for the index file
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: index_filename
    owner: SequencingData
    domain_of:
    - SequencingData
    range: string
  index_length:
    name: index_length
    annotations:
      nullable:
        tag: nullable
        value: true
    description: Read length in bases for the index file
    from_schema: https://github.com/airr-knowledge/ak-schema
    rank: 1000
    alias: index_length
    owner: SequencingData
    domain_of:
    - SequencingData
    range: integer