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Class: PortableMicrohaplotypeObject

Information on final results from a targeted amplicon analysis

URI: portable_microhaplotype_object:PortableMicrohaplotypeObject

Slots

Name Cardinality and Range Description Inheritance
experiment_info 1..*
ExperimentInfo		 a list of experiments of all the seq/amp of the specimens within this project direct
specimen_info 1..*
SpecimenInfo		 a list of all the specimens within this project direct
sequencing_info 1..*
SequencingInfo		 a list of sequencing info for this project direct
panel_info 1..*
PanelInfo		 a list of info on the panels direct
target_info 1..*
TargetInfo		 a list of info on the targets direct
targeted_genomes 1..*
GenomeInfo		 a list of genomes that the targets in TargetInfo refer to direct
microhaplotypes_info 1
RepresentativeMicrohaplotypes		 a list of the information on the representative microhaplotypes direct
bioinformatics_methods_info 1..*
BioinformaticsMethodInfo		 the bioinformatics pipeline/methods used to generated the amplicon analysis f... direct
bioinformatics_run_info 1..*
BioinformaticsRunInfo		 the runtime info for the bioinformatics pipeline used to generated the amplic... direct
microhaplotypes_detected 1..*
MicrohaplotypesDetected		 the microhaplotypes detected in this projects direct
pmo_header 1
PmoHeader		 the PMO information for this file including version etc direct
read_counts_by_stage *
ReadCountsByStage		 the read counts for different stages of the pipeline direct

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: PortableMicrohaplotypeObject
description: Information on final results from a targeted amplicon analysis
from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
attributes:
  experiment_info:
    name: experiment_info
    description: a list of experiments of all the seq/amp of the specimens within
      this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: ExperimentInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  specimen_info:
    name: specimen_info
    description: a list of all the specimens within this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: SpecimenInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  sequencing_info:
    name: sequencing_info
    description: a list of sequencing info for this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: SequencingInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  panel_info:
    name: panel_info
    description: a list of info on the panels
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: PanelInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  target_info:
    name: target_info
    description: a list of info on the targets
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: TargetInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  targeted_genomes:
    name: targeted_genomes
    description: a list of genomes that the targets in TargetInfo refer to
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: GenomeInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  microhaplotypes_info:
    name: microhaplotypes_info
    description: a list of the information on the representative microhaplotypes
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: RepresentativeMicrohaplotypes
    required: true
  bioinformatics_methods_info:
    name: bioinformatics_methods_info
    description: the bioinformatics pipeline/methods used to generated the amplicon
      analysis for this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: BioinformaticsMethodInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  bioinformatics_run_info:
    name: bioinformatics_run_info
    description: the runtime info for the bioinformatics pipeline used to generated
      the amplicon analysis for this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: BioinformaticsRunInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  microhaplotypes_detected:
    name: microhaplotypes_detected
    description: the microhaplotypes detected in this projects
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: MicrohaplotypesDetected
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  pmo_header:
    name: pmo_header
    description: the PMO information for this file including version etc
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: PmoHeader
    required: true
  read_counts_by_stage:
    name: read_counts_by_stage
    description: the read counts for different stages of the pipeline
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    domain_of:
    - PortableMicrohaplotypeObject
    range: ReadCountsByStage
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
tree_root: true

Induced

name: PortableMicrohaplotypeObject
description: Information on final results from a targeted amplicon analysis
from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
attributes:
  experiment_info:
    name: experiment_info
    description: a list of experiments of all the seq/amp of the specimens within
      this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: experiment_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: ExperimentInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  specimen_info:
    name: specimen_info
    description: a list of all the specimens within this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: specimen_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: SpecimenInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  sequencing_info:
    name: sequencing_info
    description: a list of sequencing info for this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: sequencing_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: SequencingInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  panel_info:
    name: panel_info
    description: a list of info on the panels
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: panel_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: PanelInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  target_info:
    name: target_info
    description: a list of info on the targets
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: target_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: TargetInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  targeted_genomes:
    name: targeted_genomes
    description: a list of genomes that the targets in TargetInfo refer to
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: targeted_genomes
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: GenomeInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  microhaplotypes_info:
    name: microhaplotypes_info
    description: a list of the information on the representative microhaplotypes
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: microhaplotypes_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: RepresentativeMicrohaplotypes
    required: true
  bioinformatics_methods_info:
    name: bioinformatics_methods_info
    description: the bioinformatics pipeline/methods used to generated the amplicon
      analysis for this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: bioinformatics_methods_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: BioinformaticsMethodInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  bioinformatics_run_info:
    name: bioinformatics_run_info
    description: the runtime info for the bioinformatics pipeline used to generated
      the amplicon analysis for this project
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: bioinformatics_run_info
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: BioinformaticsRunInfo
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  microhaplotypes_detected:
    name: microhaplotypes_detected
    description: the microhaplotypes detected in this projects
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: microhaplotypes_detected
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: MicrohaplotypesDetected
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  pmo_header:
    name: pmo_header
    description: the PMO information for this file including version etc
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: pmo_header
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: PmoHeader
    required: true
  read_counts_by_stage:
    name: read_counts_by_stage
    description: the read counts for different stages of the pipeline
    from_schema: https://plasmogenepi.github.io/portable-microhaplotype-object
    rank: 1000
    alias: read_counts_by_stage
    owner: PortableMicrohaplotypeObject
    domain_of:
    - PortableMicrohaplotypeObject
    range: ReadCountsByStage
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
tree_root: true