Class: BioinformaticsMethodInfo

the targeted amplicon bioinformatics pipeline

URI: portable_microhaplotype_object:BioinformaticsMethodInfo

classDiagram class BioinformaticsMethodInfo click BioinformaticsMethodInfo href "../BioinformaticsMethodInfo" BioinformaticsMethodInfo : additional_methods BioinformaticsMethodInfo --> "*" BioMethod : additional_methods click BioMethod href "../BioMethod" BioinformaticsMethodInfo : bioinformatics_method_name BioinformaticsMethodInfo : demultiplexing_method BioinformaticsMethodInfo --> "1" BioMethod : demultiplexing_method click BioMethod href "../BioMethod" BioinformaticsMethodInfo : denoising_method BioinformaticsMethodInfo --> "1" BioMethod : denoising_method click BioMethod href "../BioMethod"

Slots

Name	Cardinality and Range	Description	Inheritance
demultiplexing_method	1 BioMethod	the demultiplexing method used to separate raw reads from barcodes and primer...	direct
denoising_method	1 BioMethod	the method used to de-noise and/or cluster the raw reads	direct
additional_methods	* BioMethod	any additional methods used to analyze the data	direct
bioinformatics_method_name	0..1 String	name of the collection of methods is called, e	direct

Usages

used by	used in	type	used
PortableMicrohaplotypeObject	bioinformatics_methods_info	range	BioinformaticsMethodInfo

Identifier and Mapping Information

Schema Source

from schema: https://plasmogenepi.github.io/portable-microhaplotype-object

Mappings

Mapping Type	Mapped Value
self	portable_microhaplotype_object:BioinformaticsMethodInfo
native	portable_microhaplotype_object:BioinformaticsMethodInfo

LinkML Source

Direct

name: BioinformaticsMethodInfo
description: the targeted amplicon bioinformatics pipeline
from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
attributes:
  demultiplexing_method:
    name: demultiplexing_method
    description: the demultiplexing method used to separate raw reads from barcodes
      and primer targets
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioinformaticsMethodInfo
    range: BioMethod
    required: true
  denoising_method:
    name: denoising_method
    description: the method used to de-noise and/or cluster the raw reads
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioinformaticsMethodInfo
    range: BioMethod
    required: true
  additional_methods:
    name: additional_methods
    description: any additional methods used to analyze the data
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioinformaticsMethodInfo
    range: BioMethod
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
  bioinformatics_method_name:
    name: bioinformatics_method_name
    description: 'name of the collection of methods is called, e.g. pipeline '
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioinformaticsMethodInfo
    range: string
    required: false
    pattern: ^[A-z-._0-9 ]+$

Induced

name: BioinformaticsMethodInfo
description: the targeted amplicon bioinformatics pipeline
from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
attributes:
  demultiplexing_method:
    name: demultiplexing_method
    description: the demultiplexing method used to separate raw reads from barcodes
      and primer targets
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: demultiplexing_method
    owner: BioinformaticsMethodInfo
    domain_of:
    - BioinformaticsMethodInfo
    range: BioMethod
    required: true
  denoising_method:
    name: denoising_method
    description: the method used to de-noise and/or cluster the raw reads
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: denoising_method
    owner: BioinformaticsMethodInfo
    domain_of:
    - BioinformaticsMethodInfo
    range: BioMethod
    required: true
  additional_methods:
    name: additional_methods
    description: any additional methods used to analyze the data
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: additional_methods
    owner: BioinformaticsMethodInfo
    domain_of:
    - BioinformaticsMethodInfo
    range: BioMethod
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
  bioinformatics_method_name:
    name: bioinformatics_method_name
    description: 'name of the collection of methods is called, e.g. pipeline '
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: bioinformatics_method_name
    owner: BioinformaticsMethodInfo
    domain_of:
    - BioinformaticsMethodInfo
    range: string
    required: false
    pattern: ^[A-z-._0-9 ]+$