Class: Movie

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

classDiagram class Movie click Movie href "../Movie/" Image2D <|-- Movie click Image2D href "../Image2D/" Movie : acquisition_date Movie : acquisition_group Movie : astigmatism Movie --> "0..1" QuantityValue : astigmatism click QuantityValue href "../QuantityValue/" Movie : beam_shift_x Movie --> "0..1" QuantityValue : beam_shift_x click QuantityValue href "../QuantityValue/" Movie : beam_shift_y Movie --> "0..1" QuantityValue : beam_shift_y click QuantityValue href "../QuantityValue/" Movie : defocus Movie --> "0..1" QuantityValue : defocus click QuantityValue href "../QuantityValue/" Movie : description Movie : dimensions_x Movie --> "0..1" QuantityValue : dimensions_x click QuantityValue href "../QuantityValue/" Movie : dimensions_y Movie --> "0..1" QuantityValue : dimensions_y click QuantityValue href "../QuantityValue/" Movie : dose Movie --> "0..1" QuantityValue : dose click QuantityValue href "../QuantityValue/" Movie : dose_per_frame Movie --> "0..1" QuantityValue : dose_per_frame click QuantityValue href "../QuantityValue/" Movie : exposure_time Movie --> "0..1" QuantityValue : exposure_time click QuantityValue href "../QuantityValue/" Movie : file_name Movie : frames Movie --> "0..1" QuantityValue : frames click QuantityValue href "../QuantityValue/" Movie : grid_square_id Movie : hole_id Movie : ice_thickness_estimate Movie --> "0..1" QuantityValue : ice_thickness_estimate click QuantityValue href "../QuantityValue/" Movie : id Movie : nominal_defocus Movie --> "0..1" QuantityValue : nominal_defocus click QuantityValue href "../QuantityValue/" Movie : pixel_size Movie --> "0..1" QuantityValue : pixel_size click QuantityValue href "../QuantityValue/" Movie : pixel_size_unbinned Movie --> "0..1" QuantityValue : pixel_size_unbinned click QuantityValue href "../QuantityValue/" Movie : stage_position_x Movie --> "0..1" QuantityValue : stage_position_x click QuantityValue href "../QuantityValue/" Movie : stage_position_y Movie --> "0..1" QuantityValue : stage_position_y click QuantityValue href "../QuantityValue/" Movie : stage_position_z Movie --> "0..1" QuantityValue : stage_position_z click QuantityValue href "../QuantityValue/" Movie : super_resolution Movie : timestamp Movie : title

Inheritance

NamedThing
- Image
  - Image2D
    - Movie

Slots

Name	Cardinality and Range	Description	Inheritance
frames	0..1 QuantityValue	Number of frames in the movie	direct
super_resolution	0..1 Boolean	Whether super-resolution mode was used	direct
pixel_size_unbinned	0..1 QuantityValue	Unbinned pixel size, typically specified in Angstroms per pixel	direct
timestamp	0..1 String	Acquisition timestamp	direct
stage_position_x	0..1 QuantityValue	Stage X position, typically specified in micrometers	direct
stage_position_y	0..1 QuantityValue	Stage Y position, typically specified in micrometers	direct
stage_position_z	0..1 QuantityValue	Stage Z position, typically specified in micrometers	direct
nominal_defocus	0..1 QuantityValue	Nominal defocus value, typically specified in micrometers	direct
dose_per_frame	0..1 QuantityValue	Electron dose per frame in e-/Angstrom^2	direct
beam_shift_x	0..1 QuantityValue	Beam shift X in microradians	direct
beam_shift_y	0..1 QuantityValue	Beam shift Y in microradians	direct
ice_thickness_estimate	0..1 QuantityValue	Estimated ice thickness, typically specified 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 QuantityValue	Defocus value, typically specified in micrometers	Image2D
astigmatism	0..1 QuantityValue	Astigmatism value, typically specified 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 QuantityValue	Pixel size, typically specified in Angstroms	Image
dimensions_x	0..1 QuantityValue	Image width, typically specified in pixels	Image
dimensions_y	0..1 QuantityValue	Image height, typically specified in pixels	Image
exposure_time	0..1 QuantityValue	Exposure time, typically specified in seconds	Image
dose	0..1 QuantityValue	Electron dose in e-/Å²	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: QuantityValue
    inlined: true
  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, typically specified in Angstroms per pixel.
      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:
    - Movie
    range: QuantityValue
    inlined: true
  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, 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:
    - Movie
    range: QuantityValue
    inlined: true
  stage_position_y:
    name: stage_position_y
    description: Stage Y position, 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:
    - Movie
    range: QuantityValue
    inlined: true
  stage_position_z:
    name: stage_position_z
    description: Stage Z position, 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:
    - Movie
    range: QuantityValue
    inlined: true
  nominal_defocus:
    name: nominal_defocus
    description: Nominal defocus value, 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:
    - Movie
    range: QuantityValue
    inlined: true
  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: QuantityValue
    inlined: true
  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: QuantityValue
    inlined: true
  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: QuantityValue
    inlined: true
  ice_thickness_estimate:
    name: ice_thickness_estimate
    description: Estimated ice thickness, typically specified in nanometers. 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:
    - Movie
    range: QuantityValue
    inlined: true
  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: QuantityValue
    inlined: true
  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, typically specified in Angstroms per pixel.
      Data providers may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: pixel_size_unbinned
    owner: Movie
    domain_of:
    - Movie
    range: QuantityValue
    inlined: true
  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, 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: stage_position_x
    owner: Movie
    domain_of:
    - Movie
    range: QuantityValue
    inlined: true
  stage_position_y:
    name: stage_position_y
    description: Stage Y position, 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: stage_position_y
    owner: Movie
    domain_of:
    - Movie
    range: QuantityValue
    inlined: true
  stage_position_z:
    name: stage_position_z
    description: Stage Z position, 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: stage_position_z
    owner: Movie
    domain_of:
    - Movie
    range: QuantityValue
    inlined: true
  nominal_defocus:
    name: nominal_defocus
    description: Nominal defocus value, 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: nominal_defocus
    owner: Movie
    domain_of:
    - Movie
    range: QuantityValue
    inlined: true
  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: QuantityValue
    inlined: true
  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: QuantityValue
    inlined: true
  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: QuantityValue
    inlined: true
  ice_thickness_estimate:
    name: ice_thickness_estimate
    description: Estimated ice thickness, typically specified in nanometers. Data
      providers may specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: ice_thickness_estimate
    owner: Movie
    domain_of:
    - Movie
    range: QuantityValue
    inlined: true
  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, 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: defocus
    owner: Movie
    domain_of:
    - Image2D
    range: QuantityValue
    inlined: true
  astigmatism:
    name: astigmatism
    description: Astigmatism value, 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: astigmatism
    owner: Movie
    domain_of:
    - Image2D
    range: QuantityValue
    inlined: true
  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, 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: pixel_size
    owner: Movie
    domain_of:
    - Image
    - RefinementParameters
    range: QuantityValue
    inlined: true
  dimensions_x:
    name: dimensions_x
    description: Image width, typically specified in pixels. Data providers may specify
      alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: dimensions_x
    owner: Movie
    domain_of:
    - Image
    range: QuantityValue
    inlined: true
  dimensions_y:
    name: dimensions_y
    description: Image height, typically specified in pixels. Data providers may specify
      alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: dimensions_y
    owner: Movie
    domain_of:
    - Image
    range: QuantityValue
    inlined: true
  exposure_time:
    name: exposure_time
    description: Exposure time, typically specified in seconds. Data providers may
      specify alternative units by including the unit in the QuantityValue.
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: exposure_time
    owner: Movie
    domain_of:
    - ExperimentRun
    - Image
    - ExperimentalConditions
    range: QuantityValue
    inlined: true
  dose:
    name: dose
    description: Electron dose in e-/Å²
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: dose
    owner: Movie
    domain_of:
    - Image
    - Micrograph
    range: QuantityValue
    inlined: true
  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
    - Attribute
    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