Class: Image

A microscope-metrics image

classDiagram class Image click Image href "../Image" MetricsObject <|-- Image click MetricsObject href "../MetricsObject" Image <|-- ImageMask click ImageMask href "../ImageMask" Image <|-- OrthogonalImage click OrthogonalImage href "../OrthogonalImage" Image : acquisition_datetime Image : array_data Image --> "0..1" MetaObject : array_data click MetaObject href "../MetaObject" Image : channel_series Image --> "0..1" ChannelSeries : channel_series click ChannelSeries href "../ChannelSeries" Image : data_reference Image --> "0..1" DataReference : data_reference click DataReference href "../DataReference" Image : description Image : linked_references Image --> "*" DataReference : linked_references click DataReference href "../DataReference" Image : name Image : shape_c Image : shape_t Image : shape_x Image : shape_y Image : shape_z Image : source_images Image --> "*" DataReference : source_images click DataReference href "../DataReference" Image : time_series Image --> "0..1" TimeSeries : time_series click TimeSeries href "../TimeSeries" Image : voxel_size_x_micron Image : voxel_size_y_micron Image : voxel_size_z_micron

Inheritance

NamedObject
- MetricsObject
  - Image
    - ImageMask
    - OrthogonalImage

Slots

Name	Cardinality and Range	Description	Inheritance
acquisition_datetime	0..1 datetime	The datetime of the acquisition	direct
voxel_size_x_micron	0..1 Float	The physical size in the voxel in the x dimension in microns	direct
voxel_size_y_micron	0..1 Float	The physical size in the voxel in the y dimension in microns	direct
voxel_size_z_micron	0..1 Float	The physical size in the voxel in the z dimension in microns	direct
shape_x	1 Integer	The shape of an image in the x dimension	direct
shape_y	1 Integer	The shape of an image in the y dimension	direct
shape_z	1 Integer	The shape of an image in the z dimension	direct
shape_c	1 Integer	The shape of an image in the c dimension	direct
shape_t	1 Integer	The shape of an image in the t dimension	direct
time_series	0..1 TimeSeries	A series representing time for time-lapse images	direct
channel_series	0..1 ChannelSeries	A series representing channels for multi-channel images	direct
source_images	* DataReference	A list of references linking to the images that were used as a source	direct
array_data	0..1 MetaObject	A non-required slot for non-serializable array data object	direct
data_reference	0..1 DataReference	A reference to the data	MetricsObject
linked_references	* DataReference	A list of linked references	MetricsObject
name	0..1 String	The human readable name of an entity	NamedObject
description	0..1 String	A human readable description of an entity	NamedObject

Usages

used by	used in	type	used
FieldIlluminationInputData	field_illumination_images	range	Image
PSFBeadsInputData	psf_beads_images	range	Image
PSFBeadsOutput	average_bead	range	Image

Identifier and Mapping Information

Schema Source

from schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema

Mappings

Mapping Type	Mapped Value
self	microscopemetrics_schema:Image
native	microscopemetrics_schema:Image

LinkML Source

Direct

name: Image
description: A microscope-metrics image
from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
is_a: MetricsObject
slots:
- acquisition_datetime
- voxel_size_x_micron
- voxel_size_y_micron
- voxel_size_z_micron
- shape_x
- shape_y
- shape_z
- shape_c
- shape_t
- time_series
- channel_series
- source_images
- array_data

Induced

name: Image
description: A microscope-metrics image
from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
is_a: MetricsObject
attributes:
  acquisition_datetime:
    name: acquisition_datetime
    description: The datetime of the acquisition
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: acquisition_datetime
    owner: Image
    domain_of:
    - MetricsDataset
    - Image
    - PowerSample
    range: datetime
    multivalued: false
  voxel_size_x_micron:
    name: voxel_size_x_micron
    description: The physical size in the voxel in the x dimension in microns
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: voxel_size_x_micron
    owner: Image
    domain_of:
    - Image
    range: float
    required: false
    multivalued: false
  voxel_size_y_micron:
    name: voxel_size_y_micron
    description: The physical size in the voxel in the y dimension in microns
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: voxel_size_y_micron
    owner: Image
    domain_of:
    - Image
    range: float
    required: false
    multivalued: false
  voxel_size_z_micron:
    name: voxel_size_z_micron
    description: The physical size in the voxel in the z dimension in microns
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: voxel_size_z_micron
    owner: Image
    domain_of:
    - Image
    range: float
    required: false
    multivalued: false
  shape_x:
    name: shape_x
    description: The shape of an image in the x dimension
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: shape_x
    owner: Image
    domain_of:
    - Image
    range: integer
    required: true
    multivalued: false
  shape_y:
    name: shape_y
    description: The shape of an image in the y dimension
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: shape_y
    owner: Image
    domain_of:
    - Image
    range: integer
    required: true
    multivalued: false
  shape_z:
    name: shape_z
    description: The shape of an image in the z dimension
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    ifabsent: int(1)
    alias: shape_z
    owner: Image
    domain_of:
    - Image
    range: integer
    required: true
    multivalued: false
  shape_c:
    name: shape_c
    description: The shape of an image in the c dimension
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    ifabsent: int(1)
    alias: shape_c
    owner: Image
    domain_of:
    - Image
    range: integer
    required: true
    multivalued: false
  shape_t:
    name: shape_t
    description: The shape of an image in the t dimension
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    ifabsent: int(1)
    alias: shape_t
    owner: Image
    domain_of:
    - Image
    range: integer
    required: true
    multivalued: false
  time_series:
    name: time_series
    implements:
    - linkml:axis0
    description: A series representing time for time-lapse images.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: time_series
    owner: Image
    domain_of:
    - Image
    range: TimeSeries
    required: false
  channel_series:
    name: channel_series
    implements:
    - linkml:axis4
    description: A series representing channels for multi-channel images.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: channel_series
    owner: Image
    domain_of:
    - Image
    range: ChannelSeries
    required: false
  source_images:
    name: source_images
    description: A list of references linking to the images that were used as a source
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: source_images
    owner: Image
    domain_of:
    - Image
    range: DataReference
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
  array_data:
    name: array_data
    description: A non-required slot for non-serializable array data object
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: array_data
    owner: Image
    domain_of:
    - Image
    range: MetaObject
    required: false
    multivalued: false
  data_reference:
    name: data_reference
    description: A reference to the data
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: data_reference
    owner: Image
    domain_of:
    - MetricsObject
    range: DataReference
    required: false
    multivalued: false
  linked_references:
    name: linked_references
    description: A list of linked references
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: linked_references
    owner: Image
    domain_of:
    - MetricsObject
    range: DataReference
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
  name:
    name: name
    description: The human readable name of an entity
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: name
    owner: Image
    domain_of:
    - NamedObject
    range: string
    required: false
    multivalued: false
  description:
    name: description
    description: A human readable description of an entity
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: description
    owner: Image
    domain_of:
    - NamedObject
    range: string
    required: false
    multivalued: false