Class: BioMethod

methodology description of a portion of a bioinformatics pipeline

URI: portable_microhaplotype_object:BioMethod

classDiagram class BioMethod click BioMethod href "../BioMethod" BioMethod : additional_argument BioMethod : program BioMethod : program_version BioMethod : purpose

Slots

Name	Cardinality and Range	Description	Inheritance
program	1 String	name of the program used for this portion of the pipeline	direct
purpose	1 String	the purpose for this method	direct
program_version	1 String	versioning info for the program	direct
additional_argument	* String	any additional arguments that differ from the default	direct

Usages

used by	used in	type	used
TarAmpBioinformaticsInfo	demultiplexing_method	range	BioMethod
TarAmpBioinformaticsInfo	denoising_method	range	BioMethod
TarAmpBioinformaticsInfo	population_clustering_method	range	BioMethod
TarAmpBioinformaticsInfo	additional_methods	range	BioMethod
PortableMicrohaplotypeObject	postprocessing_bioinformatics_infos	range	BioMethod

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: BioMethod
description: methodology description of a portion of a bioinformatics pipeline
from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
attributes:
  program:
    name: program
    description: name of the program used for this portion of the pipeline
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioMethod
    range: string
    required: true
    pattern: ^[A-z-._0-9 ]$
  purpose:
    name: purpose
    description: the purpose for this method
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioMethod
    range: string
    required: true
    pattern: ^[A-z-._0-9 ]$
  program_version:
    name: program_version
    description: versioning info for the program
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioMethod
    range: string
    required: true
    pattern: ^[A-z-._0-9 ]$
  additional_argument:
    name: additional_argument
    description: any additional arguments that differ from the default
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - BioMethod
    range: string
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
    pattern: ^[A-z-._0-9 ]$

Induced

name: BioMethod
description: methodology description of a portion of a bioinformatics pipeline
from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
attributes:
  program:
    name: program
    description: name of the program used for this portion of the pipeline
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: program
    owner: BioMethod
    domain_of:
    - BioMethod
    range: string
    required: true
    pattern: ^[A-z-._0-9 ]$
  purpose:
    name: purpose
    description: the purpose for this method
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: purpose
    owner: BioMethod
    domain_of:
    - BioMethod
    range: string
    required: true
    pattern: ^[A-z-._0-9 ]$
  program_version:
    name: program_version
    description: versioning info for the program
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: program_version
    owner: BioMethod
    domain_of:
    - BioMethod
    range: string
    required: true
    pattern: ^[A-z-._0-9 ]$
  additional_argument:
    name: additional_argument
    description: any additional arguments that differ from the default
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: additional_argument
    owner: BioMethod
    domain_of:
    - BioMethod
    range: string
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
    pattern: ^[A-z-._0-9 ]$