Class: DataCollectionStrategy

Strategy for data collection

classDiagram class DataCollectionStrategy click DataCollectionStrategy href "../DataCollectionStrategy/" AttributeGroup <|-- DataCollectionStrategy click AttributeGroup href "../AttributeGroup/" DataCollectionStrategy : attenuator DataCollectionStrategy : beam_center_x_px DataCollectionStrategy --> "0..1" QuantityValue : beam_center_x_px click QuantityValue href "../QuantityValue/" DataCollectionStrategy : beam_center_y_px DataCollectionStrategy --> "0..1" QuantityValue : beam_center_y_px click QuantityValue href "../QuantityValue/" DataCollectionStrategy : beam_size_um DataCollectionStrategy --> "0..1" QuantityValue : beam_size_um click QuantityValue href "../QuantityValue/" DataCollectionStrategy : collection_mode DataCollectionStrategy --> "0..1" CollectionModeEnum : collection_mode click CollectionModeEnum href "../CollectionModeEnum/" DataCollectionStrategy : description DataCollectionStrategy : detector_distance_mm DataCollectionStrategy --> "0..1" QuantityValue : detector_distance_mm click QuantityValue href "../QuantityValue/" DataCollectionStrategy : detector_mode DataCollectionStrategy --> "0..1" DetectorModeEnum : detector_mode click DetectorModeEnum href "../DetectorModeEnum/" DataCollectionStrategy : dose_per_frame DataCollectionStrategy --> "0..1" QuantityValue : dose_per_frame click QuantityValue href "../QuantityValue/" DataCollectionStrategy : flux_photons_per_s DataCollectionStrategy --> "0..1" QuantityValue : flux_photons_per_s click QuantityValue href "../QuantityValue/" DataCollectionStrategy : frame_rate DataCollectionStrategy --> "0..1" QuantityValue : frame_rate click QuantityValue href "../QuantityValue/" DataCollectionStrategy : oscillation_per_image_deg DataCollectionStrategy --> "0..1" QuantityValue : oscillation_per_image_deg click QuantityValue href "../QuantityValue/" DataCollectionStrategy : pixel_size_calibrated DataCollectionStrategy --> "0..1" QuantityValue : pixel_size_calibrated click QuantityValue href "../QuantityValue/" DataCollectionStrategy : strategy_notes DataCollectionStrategy : temperature_k DataCollectionStrategy --> "0..1" QuantityValue : temperature_k click QuantityValue href "../QuantityValue/" DataCollectionStrategy : total_dose DataCollectionStrategy --> "0..1" QuantityValue : total_dose click QuantityValue href "../QuantityValue/" DataCollectionStrategy : total_frames DataCollectionStrategy --> "0..1" QuantityValue : total_frames click QuantityValue href "../QuantityValue/" DataCollectionStrategy : total_rotation_deg DataCollectionStrategy --> "0..1" QuantityValue : total_rotation_deg click QuantityValue href "../QuantityValue/" DataCollectionStrategy : transmission_percent DataCollectionStrategy --> "0..1" QuantityValue : transmission_percent click QuantityValue href "../QuantityValue/" DataCollectionStrategy : wavelength_a DataCollectionStrategy --> "0..1" QuantityValue : wavelength_a click QuantityValue href "../QuantityValue/"

Inheritance

AttributeGroup
- DataCollectionStrategy

Slots

Name	Cardinality and Range	Description	Inheritance
collection_mode	0..1 CollectionModeEnum	Mode of data collection	direct
total_frames	0..1 QuantityValue	Total number of frames/images	direct
frame_rate	0..1 QuantityValue	Frame rate, typically specified in frames per second	direct
total_dose	0..1 QuantityValue	Total electron dose for cryo-EM, typically specified in electrons per Angstro...	direct
dose_per_frame	0..1 QuantityValue	Dose per frame, typically specified in electrons per Angstrom squared (e⁻/Å²)	direct
wavelength_a	0..1 QuantityValue	X-ray wavelength, typically specified in Angstroms	direct
detector_mode	0..1 DetectorModeEnum	Detector operating mode used during this experiment	direct
pixel_size_calibrated	0..1 QuantityValue	Calibrated pixel size for this experiment, typically specified in Angstroms (...	direct
detector_distance_mm	0..1 QuantityValue	Detector distance, typically specified in millimeters	direct
beam_center_x_px	0..1 QuantityValue	Beam center X coordinate in pixels	direct
beam_center_y_px	0..1 QuantityValue	Beam center Y coordinate in pixels	direct
beam_size_um	0..1 QuantityValue	Beam size, typically specified in micrometers	direct
flux_photons_per_s	0..1 QuantityValue	Photon flux, typically specified in photons per second	direct
transmission_percent	0..1 QuantityValue	Beam transmission, typically specified as a percentage (0-100)	direct
attenuator	0..1 String	Attenuator setting used	direct
temperature_k	0..1 QuantityValue	Data collection temperature, typically specified in Kelvin	direct
oscillation_per_image_deg	0..1 QuantityValue	Oscillation angle per image, typically specified in degrees	direct
total_rotation_deg	0..1 QuantityValue	Total rotation range, typically specified in degrees	direct
strategy_notes	0..1 String	Notes about data collection strategy	direct
description	0..1 String		AttributeGroup

Usages

used by	used in	type	used
ExperimentRun	data_collection_strategy	range	DataCollectionStrategy

Identifier and Mapping Information

Schema Source

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

Mappings

Mapping Type	Mapped Value
self	lambdaber:DataCollectionStrategy
native	lambdaber:DataCollectionStrategy

LinkML Source

Direct

name: DataCollectionStrategy
description: Strategy for data collection
from_schema: https://w3id.org/lambda-ber-schema/
is_a: AttributeGroup
attributes:
  collection_mode:
    name: collection_mode
    description: Mode of data collection
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: CollectionModeEnum
  total_frames:
    name: total_frames
    description: Total number of frames/images
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  frame_rate:
    name: frame_rate
    description: Frame rate, typically specified in frames per second. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  total_dose:
    name: total_dose
    description: Total electron dose for cryo-EM, typically specified in electrons
      per Angstrom squared (e⁻/Å²). Data providers may specify alternative units by
      including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    domain_of:
    - ExperimentRun
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  dose_per_frame:
    name: dose_per_frame
    description: Dose per frame, typically specified in electrons per Angstrom squared
      (e⁻/Å²). Data providers may specify alternative units by including the unit
      in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    domain_of:
    - Movie
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  wavelength_a:
    name: wavelength_a
    description: X-ray wavelength, typically specified in Angstroms. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  detector_mode:
    name: detector_mode
    description: Detector operating mode used during this experiment
    comments:
    - 'For cryo-EM: counting, integrating, or super_resolution'
    - Detector technology, manufacturer, and model are specified in the Instrument
    from_schema: https://w3id.org/lambda-ber-schema/
    domain_of:
    - CryoEMInstrument
    - DataCollectionStrategy
    range: DetectorModeEnum
  pixel_size_calibrated:
    name: pixel_size_calibrated
    description: Calibrated pixel size for this experiment, typically specified in
      Angstroms (Å) per pixel. Data providers may specify alternative units by including
      the unit in the QuantityValue.
    comments:
    - 'For cryo-EM: depends on magnification (Å/pixel)'
    - 'For X-ray: typically mm/pixel or µm/pixel'
    - Physical pixel size is hardware spec stored in Instrument
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  detector_distance_mm:
    name: detector_distance_mm
    description: Detector distance, typically specified in millimeters. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  beam_center_x_px:
    name: beam_center_x_px
    description: Beam center X coordinate in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  beam_center_y_px:
    name: beam_center_y_px
    description: Beam center Y coordinate in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  beam_size_um:
    name: beam_size_um
    description: Beam size, typically specified in micrometers. Data providers may
      specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  flux_photons_per_s:
    name: flux_photons_per_s
    description: Photon flux, typically specified in photons per second. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  transmission_percent:
    name: transmission_percent
    description: Beam transmission, typically specified as a percentage (0-100). Data
      providers may specify as decimal fraction by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  attenuator:
    name: attenuator
    description: Attenuator setting used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
  temperature_k:
    name: temperature_k
    description: Data collection temperature, typically specified in Kelvin. Data
      providers may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  oscillation_per_image_deg:
    name: oscillation_per_image_deg
    description: Oscillation angle per image, typically specified in degrees. Data
      providers may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  total_rotation_deg:
    name: total_rotation_deg
    description: Total rotation range, typically specified in degrees. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  strategy_notes:
    name: strategy_notes
    description: Notes about data collection strategy
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - DataCollectionStrategy

Induced

name: DataCollectionStrategy
description: Strategy for data collection
from_schema: https://w3id.org/lambda-ber-schema/
is_a: AttributeGroup
attributes:
  collection_mode:
    name: collection_mode
    description: Mode of data collection
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: collection_mode
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: CollectionModeEnum
  total_frames:
    name: total_frames
    description: Total number of frames/images
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: total_frames
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  frame_rate:
    name: frame_rate
    description: Frame rate, typically specified in frames per second. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: frame_rate
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  total_dose:
    name: total_dose
    description: Total electron dose for cryo-EM, typically specified in electrons
      per Angstrom squared (e⁻/Å²). Data providers may specify alternative units by
      including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: total_dose
    owner: DataCollectionStrategy
    domain_of:
    - ExperimentRun
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  dose_per_frame:
    name: dose_per_frame
    description: Dose per frame, typically specified in electrons per Angstrom squared
      (e⁻/Å²). Data providers may specify alternative units by including the unit
      in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: dose_per_frame
    owner: DataCollectionStrategy
    domain_of:
    - Movie
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  wavelength_a:
    name: wavelength_a
    description: X-ray wavelength, typically specified in Angstroms. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: wavelength_a
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  detector_mode:
    name: detector_mode
    description: Detector operating mode used during this experiment
    comments:
    - 'For cryo-EM: counting, integrating, or super_resolution'
    - Detector technology, manufacturer, and model are specified in the Instrument
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: detector_mode
    owner: DataCollectionStrategy
    domain_of:
    - CryoEMInstrument
    - DataCollectionStrategy
    range: DetectorModeEnum
  pixel_size_calibrated:
    name: pixel_size_calibrated
    description: Calibrated pixel size for this experiment, typically specified in
      Angstroms (Å) per pixel. Data providers may specify alternative units by including
      the unit in the QuantityValue.
    comments:
    - 'For cryo-EM: depends on magnification (Å/pixel)'
    - 'For X-ray: typically mm/pixel or µm/pixel'
    - Physical pixel size is hardware spec stored in Instrument
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: pixel_size_calibrated
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  detector_distance_mm:
    name: detector_distance_mm
    description: Detector distance, typically specified in millimeters. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: detector_distance_mm
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  beam_center_x_px:
    name: beam_center_x_px
    description: Beam center X coordinate in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: beam_center_x_px
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  beam_center_y_px:
    name: beam_center_y_px
    description: Beam center Y coordinate in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: beam_center_y_px
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  beam_size_um:
    name: beam_size_um
    description: Beam size, typically specified in micrometers. Data providers may
      specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: beam_size_um
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  flux_photons_per_s:
    name: flux_photons_per_s
    description: Photon flux, typically specified in photons per second. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: flux_photons_per_s
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  transmission_percent:
    name: transmission_percent
    description: Beam transmission, typically specified as a percentage (0-100). Data
      providers may specify as decimal fraction by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: transmission_percent
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  attenuator:
    name: attenuator
    description: Attenuator setting used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: attenuator
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: string
  temperature_k:
    name: temperature_k
    description: Data collection temperature, typically specified in Kelvin. Data
      providers may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: temperature_k
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  oscillation_per_image_deg:
    name: oscillation_per_image_deg
    description: Oscillation angle per image, typically specified in degrees. Data
      providers may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: oscillation_per_image_deg
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  total_rotation_deg:
    name: total_rotation_deg
    description: Total rotation range, typically specified in degrees. Data providers
      may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: total_rotation_deg
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: QuantityValue
    inlined: true
  strategy_notes:
    name: strategy_notes
    description: Notes about data collection strategy
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: strategy_notes
    owner: DataCollectionStrategy
    domain_of:
    - DataCollectionStrategy
    range: string
  description:
    name: description
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: description
    owner: DataCollectionStrategy
    domain_of:
    - NamedThing
    - AttributeGroup
    range: string