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Class: Movie

Raw cryo-EM movie with frame-by-frame metadata for motion correction

URI: lambdaber:Movie

classDiagram class Movie click Movie href "../Movie/" Image2D <|-- Movie click Image2D href "../Image2D/" Movie : acquisition_date Movie : acquisition_group Movie : astigmatism Movie : beam_shift_x Movie : beam_shift_y Movie : defocus Movie : description Movie : dimensions_x Movie : dimensions_y Movie : dose Movie : dose_per_frame Movie : exposure_time Movie : file_name Movie : frames Movie : grid_square_id Movie : hole_id Movie : ice_thickness_estimate Movie : id Movie : nominal_defocus Movie : pixel_size Movie : pixel_size_unbinned Movie : stage_position_x Movie : stage_position_y Movie : stage_position_z Movie : super_resolution Movie : timestamp Movie : title

Inheritance

Slots

Name Cardinality and Range Description Inheritance
frames 0..1
Integer		 Number of frames in the movie direct
super_resolution 0..1
Boolean		 Whether super-resolution mode was used direct
pixel_size_unbinned 0..1
Float		 Unbinned pixel size in Angstroms per pixel direct
timestamp 0..1
String		 Acquisition timestamp direct
stage_position_x 0..1
Float		 Stage X position in micrometers direct
stage_position_y 0..1
Float		 Stage Y position in micrometers direct
stage_position_z 0..1
Float		 Stage Z position in micrometers direct
nominal_defocus 0..1
Float		 Nominal defocus value in micrometers direct
dose_per_frame 0..1
Float		 Electron dose per frame in e-/Angstrom^2 direct
beam_shift_x 0..1
Float		 Beam shift X in microradians direct
beam_shift_y 0..1
Float		 Beam shift Y in microradians direct
ice_thickness_estimate 0..1
Float		 Estimated ice thickness in nanometers direct
grid_square_id 0..1
String		 Grid square identifier direct
hole_id 0..1
String		 Hole identifier within grid square direct
acquisition_group 0..1
String		 Acquisition group identifier (e direct
defocus 0..1
Float		 Defocus value in micrometers Image2D
astigmatism 0..1
Float		 Astigmatism value in Angstroms Image2D
file_name 1
String		 Image file name Image
acquisition_date 0..1
String		 Date image was acquired Image
pixel_size 0..1
Float		 Pixel size in Angstroms Image
dimensions_x 0..1
Integer		 Image width in pixels Image
dimensions_y 0..1
Integer		 Image height in pixels Image
exposure_time 0..1
Float		 Exposure time in seconds Image
dose 0..1
Float		 Electron dose in e-/Ų Image
id 1
Uriorcurie		 Globally unique identifier as an IRI or CURIE for machine processing and exte... NamedThing
title 0..1
String		 A human-readable name or title for this entity NamedThing
description 0..1
String		 A detailed textual description of this entity NamedThing

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: Movie
description: Raw cryo-EM movie with frame-by-frame metadata for motion correction
from_schema: https://w3id.org/lambda-ber-schema/
is_a: Image2D
attributes:
  frames:
    name: frames
    description: Number of frames in the movie
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: integer
  super_resolution:
    name: super_resolution
    description: Whether super-resolution mode was used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: boolean
  pixel_size_unbinned:
    name: pixel_size_unbinned
    description: Unbinned pixel size in Angstroms per pixel
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  timestamp:
    name: timestamp
    description: Acquisition timestamp
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: string
  stage_position_x:
    name: stage_position_x
    description: Stage X position in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  stage_position_y:
    name: stage_position_y
    description: Stage Y position in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  stage_position_z:
    name: stage_position_z
    description: Stage Z position in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  nominal_defocus:
    name: nominal_defocus
    description: Nominal defocus value in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  dose_per_frame:
    name: dose_per_frame
    description: Electron dose per frame in e-/Angstrom^2
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    - DataCollectionStrategy
    range: float
  beam_shift_x:
    name: beam_shift_x
    description: Beam shift X in microradians
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  beam_shift_y:
    name: beam_shift_y
    description: Beam shift Y in microradians
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  ice_thickness_estimate:
    name: ice_thickness_estimate
    description: Estimated ice thickness in nanometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: float
  grid_square_id:
    name: grid_square_id
    description: Grid square identifier
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: string
  hole_id:
    name: hole_id
    description: Hole identifier within grid square
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: string
  acquisition_group:
    name: acquisition_group
    description: Acquisition group identifier (e.g., template or area)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - Movie
    range: string

Induced

name: Movie
description: Raw cryo-EM movie with frame-by-frame metadata for motion correction
from_schema: https://w3id.org/lambda-ber-schema/
is_a: Image2D
attributes:
  frames:
    name: frames
    description: Number of frames in the movie
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: frames
    owner: Movie
    domain_of:
    - Movie
    range: integer
  super_resolution:
    name: super_resolution
    description: Whether super-resolution mode was used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: super_resolution
    owner: Movie
    domain_of:
    - Movie
    range: boolean
  pixel_size_unbinned:
    name: pixel_size_unbinned
    description: Unbinned pixel size in Angstroms per pixel
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: pixel_size_unbinned
    owner: Movie
    domain_of:
    - Movie
    range: float
  timestamp:
    name: timestamp
    description: Acquisition timestamp
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: timestamp
    owner: Movie
    domain_of:
    - Movie
    range: string
  stage_position_x:
    name: stage_position_x
    description: Stage X position in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: stage_position_x
    owner: Movie
    domain_of:
    - Movie
    range: float
  stage_position_y:
    name: stage_position_y
    description: Stage Y position in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: stage_position_y
    owner: Movie
    domain_of:
    - Movie
    range: float
  stage_position_z:
    name: stage_position_z
    description: Stage Z position in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: stage_position_z
    owner: Movie
    domain_of:
    - Movie
    range: float
  nominal_defocus:
    name: nominal_defocus
    description: Nominal defocus value in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: nominal_defocus
    owner: Movie
    domain_of:
    - Movie
    range: float
  dose_per_frame:
    name: dose_per_frame
    description: Electron dose per frame in e-/Angstrom^2
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: dose_per_frame
    owner: Movie
    domain_of:
    - Movie
    - DataCollectionStrategy
    range: float
  beam_shift_x:
    name: beam_shift_x
    description: Beam shift X in microradians
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: beam_shift_x
    owner: Movie
    domain_of:
    - Movie
    range: float
  beam_shift_y:
    name: beam_shift_y
    description: Beam shift Y in microradians
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: beam_shift_y
    owner: Movie
    domain_of:
    - Movie
    range: float
  ice_thickness_estimate:
    name: ice_thickness_estimate
    description: Estimated ice thickness in nanometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: ice_thickness_estimate
    owner: Movie
    domain_of:
    - Movie
    range: float
  grid_square_id:
    name: grid_square_id
    description: Grid square identifier
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: grid_square_id
    owner: Movie
    domain_of:
    - Movie
    range: string
  hole_id:
    name: hole_id
    description: Hole identifier within grid square
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: hole_id
    owner: Movie
    domain_of:
    - Movie
    range: string
  acquisition_group:
    name: acquisition_group
    description: Acquisition group identifier (e.g., template or area)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: acquisition_group
    owner: Movie
    domain_of:
    - Movie
    range: string
  defocus:
    name: defocus
    description: Defocus value in micrometers
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: defocus
    owner: Movie
    domain_of:
    - Image2D
    range: float
  astigmatism:
    name: astigmatism
    description: Astigmatism value in Angstroms
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: astigmatism
    owner: Movie
    domain_of:
    - Image2D
    range: float
  file_name:
    name: file_name
    description: Image file name
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: file_name
    owner: Movie
    domain_of:
    - DataFile
    - Image
    range: string
    required: true
  acquisition_date:
    name: acquisition_date
    description: Date image was acquired
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: acquisition_date
    owner: Movie
    domain_of:
    - Image
    range: string
  pixel_size:
    name: pixel_size
    description: Pixel size in Angstroms
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: pixel_size
    owner: Movie
    domain_of:
    - Image
    - RefinementParameters
    range: float
  dimensions_x:
    name: dimensions_x
    description: Image width in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: dimensions_x
    owner: Movie
    domain_of:
    - Image
    range: integer
  dimensions_y:
    name: dimensions_y
    description: Image height in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: dimensions_y
    owner: Movie
    domain_of:
    - Image
    range: integer
  exposure_time:
    name: exposure_time
    description: Exposure time in seconds
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: exposure_time
    owner: Movie
    domain_of:
    - ExperimentRun
    - Image
    - ExperimentalConditions
    range: float
  dose:
    name: dose
    description: Electron dose in e-/Ų
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: dose
    owner: Movie
    domain_of:
    - Image
    - Micrograph
    range: float
  id:
    name: id
    description: Globally unique identifier as an IRI or CURIE for machine processing
      and external references. Used for linking data across systems and semantic web
      integration.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    identifier: true
    alias: id
    owner: Movie
    domain_of:
    - NamedThing
    range: uriorcurie
    required: true
  title:
    name: title
    description: A human-readable name or title for this entity
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: dcterms:title
    alias: title
    owner: Movie
    domain_of:
    - NamedThing
    range: string
  description:
    name: description
    description: A detailed textual description of this entity
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: description
    owner: Movie
    domain_of:
    - NamedThing
    - AttributeGroup
    range: string