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Class: SampleEnv

Unifying class to describe the full sample.

URI: https://w3id.org/osc-em/oscem-schemas-env-tomo/:SampleEnv

erDiagram SampleEnv { } TomogramFeatures { string cellular_features stringList organelles string main_target string details_tomo } Thinning { string method_thin string instrument_thin string ion_source boolean lift_out } QuantitySI { float valueSI string unitSI string unit float value } Freezing { string cryogen_sample_env FreezingMethodEnum method boolean blotting string atmosphere string details } SpecimenEnv { stringList organism string tissue string source_env string location date collection_date string handling } SampleEnv ||--|| SpecimenEnv : "specimen_env" SampleEnv ||--|o Freezing : "freezing" SampleEnv ||--|o Thinning : "thinning" SampleEnv ||--|o TomogramFeatures : "tomogram_features" Thinning ||--|o QuantitySI : "target_thickness" Freezing ||--|o QuantitySI : "humidity_env" Freezing ||--|o QuantitySI : "temperature_env"

Slots

Name Cardinality and Range Description Inheritance
specimen_env 1
SpecimenEnv		 direct
freezing 0..1
Freezing		 direct
thinning 0..1
Thinning		 direct
tomogram_features 0..1
TomogramFeatures		 direct

Usages

used by used in type used
EMDatasetEnv sample range SampleEnv

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/osc-em/oscem-schemas-env-tomo

Mappings

Mapping Type Mapped Value
self https://w3id.org/osc-em/oscem-schemas-env-tomo/:SampleEnv
native https://w3id.org/osc-em/oscem-schemas-env-tomo/:SampleEnv

LinkML Source

Direct

name: SampleEnv
description: Unifying class to describe the full sample.
from_schema: https://w3id.org/osc-em/oscem-schemas-env-tomo
slots:
- specimen_env
- freezing
- thinning
- tomogram_features
slot_usage:
  specimen_env:
    name: specimen_env
    required: true

Induced

name: SampleEnv
description: Unifying class to describe the full sample.
from_schema: https://w3id.org/osc-em/oscem-schemas-env-tomo
slot_usage:
  specimen_env:
    name: specimen_env
    required: true
attributes:
  specimen_env:
    name: specimen_env
    from_schema: https://w3id.org/osc-em/oscem-schemas-env-tomo
    rank: 1000
    alias: specimen_env
    owner: SampleEnv
    domain_of:
    - SampleEnv
    range: SpecimenEnv
    required: true
  freezing:
    name: freezing
    from_schema: https://w3id.org/osc-em/oscem-schemas-env-tomo
    rank: 1000
    alias: freezing
    owner: SampleEnv
    domain_of:
    - SampleEnv
    range: Freezing
  thinning:
    name: thinning
    from_schema: https://w3id.org/osc-em/oscem-schemas-env-tomo
    rank: 1000
    alias: thinning
    owner: SampleEnv
    domain_of:
    - SampleEnv
    range: Thinning
  tomogram_features:
    name: tomogram_features
    from_schema: https://w3id.org/osc-em/oscem-schemas-env-tomo
    rank: 1000
    alias: tomogram_features
    owner: SampleEnv
    domain_of:
    - SampleEnv
    range: TomogramFeatures