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Class: QuantityValue

A simple quantity value, representing a measurement with a numeric value and unit. This allows data providers to specify measurements in their preferred unit while enabling standardized interpretation. For example, a pixel size could be specified as 1.5 micrometers or 15 Angstroms, with the unit clearly specified.

URI: nmdc:QuantityValue

classDiagram class QuantityValue click QuantityValue href "../QuantityValue/" AttributeValue <|-- QuantityValue click AttributeValue href "../AttributeValue/" QuantityValue : attribute QuantityValue --> "0..1" Attribute : attribute click Attribute href "../Attribute/" QuantityValue : maximum_numeric_value QuantityValue : minimum_numeric_value QuantityValue : numeric_value QuantityValue : raw_value QuantityValue : unit QuantityValue : unit_cv_id

Inheritance

Slots

Name Cardinality and Range Description Inheritance
maximum_numeric_value 0..1
Float
The maximum value part, expressed as a number, of the quantity value when the... direct
minimum_numeric_value 0..1
Float
The minimum value part, expressed as a number, of the quantity value when the... direct
numeric_value 0..1
Float
The numerical value of the quantity direct
unit 1
String
The unit of measurement (e direct
unit_cv_id 0..1
Curie
The unit of the quantity, expressed as a CURIE from the Unit Ontology (e direct
attribute 0..1
Attribute
The attribute being represented AttributeValue
raw_value 0..1
String
Unnormalized atomic string representation, suggested syntax {number} {unit} AttributeValue

Usages

used by used in type used
Sample molecular_weight range QuantityValue
Sample concentration range QuantityValue
Sample purity_percentage range QuantityValue
ProteinConstruct sequence_length_aa range QuantityValue
SamplePreparation culture_volume_l range QuantityValue
SamplePreparation growth_temperature_c range QuantityValue
SamplePreparation induction_temperature_c range QuantityValue
SamplePreparation induction_time_h range QuantityValue
SamplePreparation od600_at_induction range QuantityValue
SamplePreparation cleavage_time_h range QuantityValue
SamplePreparation cleavage_temperature_c range QuantityValue
SamplePreparation final_concentration_mg_per_ml range QuantityValue
SamplePreparation yield_mg range QuantityValue
SamplePreparation purity_by_sds_page_percent range QuantityValue
CryoEMInstrument accelerating_voltage range QuantityValue
CryoEMInstrument pixel_size_physical_um range QuantityValue
CryoEMInstrument autoloader_capacity range QuantityValue
CryoEMInstrument cs range QuantityValue
CryoEMInstrument c2_aperture range QuantityValue
CryoEMInstrument objective_aperture range QuantityValue
CryoEMInstrument energy_filter_slit_width range QuantityValue
CryoEMInstrument pixel_size_physical range QuantityValue
CryoEMInstrument spotsize range QuantityValue
CryoEMInstrument gunlens range QuantityValue
CryoEMInstrument tem_beam_diameter range QuantityValue
XRayInstrument energy_min range QuantityValue
XRayInstrument energy_max range QuantityValue
XRayInstrument beam_size_min range QuantityValue
XRayInstrument beam_size_max range QuantityValue
XRayInstrument flux_density range QuantityValue
SAXSInstrument q_range_min range QuantityValue
SAXSInstrument q_range_max range QuantityValue
SAXSInstrument detector_distance_min range QuantityValue
SAXSInstrument detector_distance_max range QuantityValue
SAXSInstrument sample_changer_capacity range QuantityValue
BeamlineInstrument energy_min range QuantityValue
BeamlineInstrument energy_max range QuantityValue
BeamlineInstrument q_range_min range QuantityValue
BeamlineInstrument q_range_max range QuantityValue
BeamlineInstrument sample_changer_capacity range QuantityValue
ExperimentRun magnification range QuantityValue
ExperimentRun calibrated_pixel_size range QuantityValue
ExperimentRun camera_binning range QuantityValue
ExperimentRun exposure_time_per_frame range QuantityValue
ExperimentRun frames_per_movie range QuantityValue
ExperimentRun total_exposure_time range QuantityValue
ExperimentRun total_dose range QuantityValue
ExperimentRun dose_rate range QuantityValue
ExperimentRun defocus_target range QuantityValue
ExperimentRun defocus_range_min range QuantityValue
ExperimentRun defocus_range_max range QuantityValue
ExperimentRun defocus_range_increment range QuantityValue
ExperimentRun astigmatism_target range QuantityValue
ExperimentRun coma range QuantityValue
ExperimentRun stage_tilt range QuantityValue
ExperimentRun shots_per_hole range QuantityValue
ExperimentRun holes_per_group range QuantityValue
ExperimentRun wavelength range QuantityValue
ExperimentRun oscillation_angle range QuantityValue
ExperimentRun start_angle range QuantityValue
ExperimentRun number_of_images range QuantityValue
ExperimentRun beam_center_x range QuantityValue
ExperimentRun beam_center_y range QuantityValue
ExperimentRun detector_distance range QuantityValue
ExperimentRun pixel_size_x range QuantityValue
ExperimentRun pixel_size_y range QuantityValue
ExperimentRun total_rotation range QuantityValue
ExperimentRun transmission range QuantityValue
ExperimentRun flux range QuantityValue
ExperimentRun flux_end range QuantityValue
ExperimentRun slit_gap_horizontal range QuantityValue
ExperimentRun slit_gap_vertical range QuantityValue
ExperimentRun undulator_gap range QuantityValue
ExperimentRun exposure_time range QuantityValue
ExperimentRun resolution range QuantityValue
ExperimentRun resolution_at_corner range QuantityValue
ExperimentRun ispyb_data_collection_id range QuantityValue
ExperimentRun ispyb_session_id range QuantityValue
WorkflowRun processing_level range QuantityValue
WorkflowRun number_of_waters range QuantityValue
WorkflowRun refinement_resolution_a range QuantityValue
WorkflowRun unit_cell_a range QuantityValue
WorkflowRun unit_cell_b range QuantityValue
WorkflowRun unit_cell_c range QuantityValue
WorkflowRun unit_cell_alpha range QuantityValue
WorkflowRun unit_cell_beta range QuantityValue
WorkflowRun unit_cell_gamma range QuantityValue
WorkflowRun resolution_high range QuantityValue
WorkflowRun resolution_low range QuantityValue
WorkflowRun rmerge range QuantityValue
WorkflowRun rpim range QuantityValue
WorkflowRun cc_half range QuantityValue
WorkflowRun completeness_percent range QuantityValue
WorkflowRun i_over_sigma range QuantityValue
WorkflowRun wilson_b_factor range QuantityValue
WorkflowRun multiplicity range QuantityValue
WorkflowRun anomalous_completeness range QuantityValue
WorkflowRun anomalous_multiplicity range QuantityValue
WorkflowRun cc_anomalous range QuantityValue
WorkflowRun r_anomalous range QuantityValue
WorkflowRun sig_anomalous range QuantityValue
WorkflowRun n_total_observations range QuantityValue
WorkflowRun n_total_unique range QuantityValue
WorkflowRun ispyb_auto_proc_program_id range QuantityValue
WorkflowRun ispyb_auto_proc_scaling_id range QuantityValue
WorkflowRun rwork range QuantityValue
WorkflowRun rfree range QuantityValue
WorkflowRun rmsd_bonds range QuantityValue
WorkflowRun rmsd_angles range QuantityValue
WorkflowRun ramachandran_favored range QuantityValue
WorkflowRun ramachandran_outliers range QuantityValue
WorkflowRun clashscore range QuantityValue
DataFile file_size_bytes range QuantityValue
Image pixel_size range QuantityValue
Image dimensions_x range QuantityValue
Image dimensions_y range QuantityValue
Image exposure_time range QuantityValue
Image dose range QuantityValue
Image2D defocus range QuantityValue
Image2D astigmatism range QuantityValue
Image2D pixel_size range QuantityValue
Image2D dimensions_x range QuantityValue
Image2D dimensions_y range QuantityValue
Image2D exposure_time range QuantityValue
Image2D dose range QuantityValue
Image3D dimensions_z range QuantityValue
Image3D voxel_size range QuantityValue
Image3D pixel_size range QuantityValue
Image3D dimensions_x range QuantityValue
Image3D dimensions_y range QuantityValue
Image3D exposure_time range QuantityValue
Image3D dose range QuantityValue
Movie frames range QuantityValue
Movie pixel_size_unbinned range QuantityValue
Movie stage_position_x range QuantityValue
Movie stage_position_y range QuantityValue
Movie stage_position_z range QuantityValue
Movie nominal_defocus range QuantityValue
Movie dose_per_frame range QuantityValue
Movie beam_shift_x range QuantityValue
Movie beam_shift_y range QuantityValue
Movie ice_thickness_estimate range QuantityValue
Movie defocus range QuantityValue
Movie astigmatism range QuantityValue
Movie pixel_size range QuantityValue
Movie dimensions_x range QuantityValue
Movie dimensions_y range QuantityValue
Movie exposure_time range QuantityValue
Movie dose range QuantityValue
Micrograph dose range QuantityValue
Micrograph defocus_u range QuantityValue
Micrograph defocus_v range QuantityValue
Micrograph astigmatism_angle range QuantityValue
Micrograph resolution_fit_limit range QuantityValue
Micrograph ctf_quality_score range QuantityValue
Micrograph defocus range QuantityValue
Micrograph astigmatism range QuantityValue
Micrograph pixel_size range QuantityValue
Micrograph dimensions_x range QuantityValue
Micrograph dimensions_y range QuantityValue
Micrograph exposure_time range QuantityValue
FTIRImage wavenumber_min range QuantityValue
FTIRImage wavenumber_max range QuantityValue
FTIRImage spectral_resolution range QuantityValue
FTIRImage number_of_scans range QuantityValue
FTIRImage pixel_size range QuantityValue
FTIRImage dimensions_x range QuantityValue
FTIRImage dimensions_y range QuantityValue
FTIRImage exposure_time range QuantityValue
FTIRImage dose range QuantityValue
FluorescenceImage excitation_wavelength range QuantityValue
FluorescenceImage emission_wavelength range QuantityValue
FluorescenceImage laser_power range QuantityValue
FluorescenceImage pinhole_size range QuantityValue
FluorescenceImage quantum_yield range QuantityValue
FluorescenceImage defocus range QuantityValue
FluorescenceImage astigmatism range QuantityValue
FluorescenceImage pixel_size range QuantityValue
FluorescenceImage dimensions_x range QuantityValue
FluorescenceImage dimensions_y range QuantityValue
FluorescenceImage exposure_time range QuantityValue
FluorescenceImage dose range QuantityValue
OpticalImage magnification range QuantityValue
OpticalImage numerical_aperture range QuantityValue
OpticalImage defocus range QuantityValue
OpticalImage astigmatism range QuantityValue
OpticalImage pixel_size range QuantityValue
OpticalImage dimensions_x range QuantityValue
OpticalImage dimensions_y range QuantityValue
OpticalImage exposure_time range QuantityValue
OpticalImage dose range QuantityValue
XRFImage beam_energy range QuantityValue
XRFImage beam_size range QuantityValue
XRFImage dwell_time range QuantityValue
XRFImage flux range QuantityValue
XRFImage defocus range QuantityValue
XRFImage astigmatism range QuantityValue
XRFImage pixel_size range QuantityValue
XRFImage dimensions_x range QuantityValue
XRFImage dimensions_y range QuantityValue
XRFImage exposure_time range QuantityValue
XRFImage dose range QuantityValue
BufferComposition ph range QuantityValue
StorageConditions temperature range QuantityValue
CryoEMPreparation hole_size range QuantityValue
CryoEMPreparation blot_time range QuantityValue
CryoEMPreparation blot_force range QuantityValue
CryoEMPreparation humidity_percentage range QuantityValue
CryoEMPreparation chamber_temperature range QuantityValue
CryoEMPreparation glow_discharge_time range QuantityValue
CryoEMPreparation glow_discharge_current range QuantityValue
CryoEMPreparation glow_discharge_pressure range QuantityValue
CryoEMPreparation blot_number range QuantityValue
CryoEMPreparation wait_time range QuantityValue
CryoEMPreparation blotter_height range QuantityValue
CryoEMPreparation blotter_setting range QuantityValue
CryoEMPreparation sample_applied_volume range QuantityValue
CryoEMPreparation ethane_temperature range QuantityValue
CrystallizationConditions drop_volume range QuantityValue
CrystallizationConditions protein_concentration range QuantityValue
CrystallizationConditions temperature_c range QuantityValue
CrystallizationConditions reservoir_volume_ul range QuantityValue
XRayPreparation protein_concentration_mg_per_ml range QuantityValue
XRayPreparation temperature_c range QuantityValue
XRayPreparation drop_volume_nl range QuantityValue
XRayPreparation reservoir_volume_ul range QuantityValue
XRayPreparation cryoprotectant_concentration range QuantityValue
XRayPreparation loop_size range QuantityValue
XRayPreparation mounting_temperature range QuantityValue
SAXSPreparation concentration_series range QuantityValue
SAXSPreparation cell_path_length range QuantityValue
ExperimentalConditions temperature range QuantityValue
ExperimentalConditions humidity range QuantityValue
ExperimentalConditions pressure range QuantityValue
ExperimentalConditions beam_energy range QuantityValue
ExperimentalConditions exposure_time range QuantityValue
DataCollectionStrategy total_frames range QuantityValue
DataCollectionStrategy frame_rate range QuantityValue
DataCollectionStrategy total_dose range QuantityValue
DataCollectionStrategy dose_per_frame range QuantityValue
DataCollectionStrategy wavelength_a range QuantityValue
DataCollectionStrategy pixel_size_calibrated range QuantityValue
DataCollectionStrategy detector_distance_mm range QuantityValue
DataCollectionStrategy beam_center_x_px range QuantityValue
DataCollectionStrategy beam_center_y_px range QuantityValue
DataCollectionStrategy beam_size_um range QuantityValue
DataCollectionStrategy flux_photons_per_s range QuantityValue
DataCollectionStrategy transmission_percent range QuantityValue
DataCollectionStrategy temperature_k range QuantityValue
DataCollectionStrategy oscillation_per_image_deg range QuantityValue
DataCollectionStrategy total_rotation_deg range QuantityValue
QualityMetrics resolution range QuantityValue
QualityMetrics resolution_high_shell_a range QuantityValue
QualityMetrics resolution_low_a range QuantityValue
QualityMetrics completeness range QuantityValue
QualityMetrics completeness_high_res_shell_percent range QuantityValue
QualityMetrics signal_to_noise range QuantityValue
QualityMetrics mean_i_over_sigma_i range QuantityValue
QualityMetrics unit_cell_a range QuantityValue
QualityMetrics unit_cell_b range QuantityValue
QualityMetrics unit_cell_c range QuantityValue
QualityMetrics unit_cell_alpha range QuantityValue
QualityMetrics unit_cell_beta range QuantityValue
QualityMetrics unit_cell_gamma range QuantityValue
QualityMetrics multiplicity range QuantityValue
QualityMetrics cc_half range QuantityValue
QualityMetrics r_merge range QuantityValue
QualityMetrics r_pim range QuantityValue
QualityMetrics wilson_b_factor_a2 range QuantityValue
QualityMetrics anom_corr range QuantityValue
QualityMetrics anom_sig_ano range QuantityValue
QualityMetrics r_work range QuantityValue
QualityMetrics r_free range QuantityValue
QualityMetrics ramachandran_favored_percent range QuantityValue
QualityMetrics ramachandran_outliers_percent range QuantityValue
QualityMetrics clashscore range QuantityValue
QualityMetrics molprobity_score range QuantityValue
QualityMetrics average_b_factor_a2 range QuantityValue
QualityMetrics i_zero range QuantityValue
QualityMetrics rg range QuantityValue
QualityMetrics r_factor range QuantityValue
ComputeResources cpu_hours range QuantityValue
ComputeResources gpu_hours range QuantityValue
ComputeResources memory_gb range QuantityValue
ComputeResources storage_gb range QuantityValue
MotionCorrectionParameters patch_size range QuantityValue
MotionCorrectionParameters binning range QuantityValue
MotionCorrectionParameters bfactor_dose_weighting range QuantityValue
MotionCorrectionParameters frame_grouping range QuantityValue
MotionCorrectionParameters output_binning range QuantityValue
MotionCorrectionParameters drift_total range QuantityValue
CTFEstimationParameters defocus_search_min range QuantityValue
CTFEstimationParameters defocus_search_max range QuantityValue
CTFEstimationParameters defocus_step range QuantityValue
CTFEstimationParameters amplitude_contrast range QuantityValue
CTFEstimationParameters cs_used_in_estimation range QuantityValue
CTFEstimationParameters voltage_used_in_estimation range QuantityValue
ParticlePickingParameters box_size range QuantityValue
ParticlePickingParameters threshold range QuantityValue
ParticlePickingParameters power_score range QuantityValue
ParticlePickingParameters ncc_score range QuantityValue
RefinementParameters pixel_size range QuantityValue
RefinementParameters box_size range QuantityValue
RefinementParameters resolution_0_143 range QuantityValue
RefinementParameters resolution_0_5 range QuantityValue
RefinementParameters map_sharpening_bfactor range QuantityValue
FSCCurve resolution_angstrom range QuantityValue
FSCCurve fsc_value range QuantityValue
MeasurementConditions ph range QuantityValue
MeasurementConditions ionic_strength range QuantityValue
MeasurementConditions temperature range QuantityValue

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/lambda-ber-schema/

Mappings

Mapping Type Mapped Value
self nmdc:QuantityValue
native lambdaber:QuantityValue
undefined schema:QuantityValue

LinkML Source

Direct

name: QuantityValue
description: A simple quantity value, representing a measurement with a numeric value
  and unit. This allows data providers to specify measurements in their preferred
  unit while enabling standardized interpretation. For example, a pixel size could
  be specified as 1.5 micrometers or 15 Angstroms, with the unit clearly specified.
from_schema: https://w3id.org/lambda-ber-schema/
mappings:
- schema:QuantityValue
is_a: AttributeValue
slots:
- maximum_numeric_value
- minimum_numeric_value
- numeric_value
- unit
- unit_cv_id
slot_usage:
  numeric_value:
    name: numeric_value
    description: The numerical value of the quantity. May be null if the value is
      unknown or not measured.
    required: false
  unit:
    name: unit
    description: The unit of measurement (e.g., "Angstroms", "micrometers", "kilodaltons").
      Should match the UCUM standard notation or Unit Ontology.
    required: true
  raw_value:
    name: raw_value
    description: Unnormalized atomic string representation, suggested syntax {number}
      {unit}
    examples:
    - value: 1.5 micrometers
    - value: 50 Angstroms
class_uri: nmdc:QuantityValue

Induced

name: QuantityValue
description: A simple quantity value, representing a measurement with a numeric value
  and unit. This allows data providers to specify measurements in their preferred
  unit while enabling standardized interpretation. For example, a pixel size could
  be specified as 1.5 micrometers or 15 Angstroms, with the unit clearly specified.
from_schema: https://w3id.org/lambda-ber-schema/
mappings:
- schema:QuantityValue
is_a: AttributeValue
slot_usage:
  numeric_value:
    name: numeric_value
    description: The numerical value of the quantity. May be null if the value is
      unknown or not measured.
    required: false
  unit:
    name: unit
    description: The unit of measurement (e.g., "Angstroms", "micrometers", "kilodaltons").
      Should match the UCUM standard notation or Unit Ontology.
    required: true
  raw_value:
    name: raw_value
    description: Unnormalized atomic string representation, suggested syntax {number}
      {unit}
    examples:
    - value: 1.5 micrometers
    - value: 50 Angstroms
attributes:
  maximum_numeric_value:
    name: maximum_numeric_value
    description: The maximum value part, expressed as a number, of the quantity value
      when the value covers a range.
    from_schema: https://w3id.org/lambda-ber-schema/
    mappings:
    - nmdc:maximum_numeric_value
    rank: 1000
    is_a: numeric_value
    alias: maximum_numeric_value
    owner: QuantityValue
    domain_of:
    - QuantityValue
    range: float
  minimum_numeric_value:
    name: minimum_numeric_value
    description: The minimum value part, expressed as a number, of the quantity value
      when the value covers a range.
    from_schema: https://w3id.org/lambda-ber-schema/
    mappings:
    - nmdc:minimum_numeric_value
    rank: 1000
    is_a: numeric_value
    alias: minimum_numeric_value
    owner: QuantityValue
    domain_of:
    - QuantityValue
    range: float
  numeric_value:
    name: numeric_value
    description: The numerical value of the quantity. May be null if the value is
      unknown or not measured.
    from_schema: https://w3id.org/lambda-ber-schema/
    mappings:
    - nmdc:numeric_value
    - qud:quantityValue
    - schema:value
    rank: 1000
    alias: numeric_value
    owner: QuantityValue
    domain_of:
    - QuantityValue
    range: float
    required: false
  unit:
    name: unit
    description: The unit of measurement (e.g., "Angstroms", "micrometers", "kilodaltons").
      Should match the UCUM standard notation or Unit Ontology.
    from_schema: https://w3id.org/lambda-ber-schema/
    aliases:
    - scale
    mappings:
    - nmdc:unit
    - qud:unit
    - schema:unitCode
    - UO:0000000
    rank: 1000
    alias: unit
    owner: QuantityValue
    domain_of:
    - QuantityValue
    - BiophysicalProperty
    range: string
    required: true
  unit_cv_id:
    name: unit_cv_id
    description: The unit of the quantity, expressed as a CURIE from the Unit Ontology
      (e.g., UO:0000016 for micrometer).
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: unit_cv_id
    owner: QuantityValue
    domain_of:
    - QuantityValue
    range: curie
  attribute:
    name: attribute
    description: The attribute being represented.
    from_schema: https://w3id.org/lambda-ber-schema/types
    alias: attribute
    owner: QuantityValue
    domain_of:
    - AttributeValue
    range: Attribute
  raw_value:
    name: raw_value
    description: Unnormalized atomic string representation, suggested syntax {number}
      {unit}
    examples:
    - value: 1.5 micrometers
    - value: 50 Angstroms
    from_schema: https://w3id.org/lambda-ber-schema/types
    alias: raw_value
    owner: QuantityValue
    domain_of:
    - AttributeValue
    range: string
class_uri: nmdc:QuantityValue