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Class: RefinementParameters

Parameters specific to 3D refinement workflows

URI: lambdaber:RefinementParameters

classDiagram class RefinementParameters click RefinementParameters href "../RefinementParameters/" AttributeGroup <|-- RefinementParameters click AttributeGroup href "../AttributeGroup/" RefinementParameters : box_size RefinementParameters : description RefinementParameters : gold_standard RefinementParameters : map_sharpening_bfactor RefinementParameters : pixel_size RefinementParameters : resolution_0_143 RefinementParameters : resolution_0_5 RefinementParameters : split_strategy RefinementParameters : symmetry RefinementParameters --> "0..1" SymmetryEnum : symmetry click SymmetryEnum href "../SymmetryEnum/"

Inheritance

Slots

Name Cardinality and Range Description Inheritance
symmetry 0..1
SymmetryEnum		 Symmetry applied (C1, Cn, Dn, T, O, I) direct
pixel_size 0..1
Float		 Pixel size in Angstroms per pixel direct
box_size 0..1
Integer		 Box size in pixels direct
gold_standard 0..1
Boolean		 Whether gold-standard refinement was used direct
split_strategy 0..1
String		 Strategy for data splitting direct
resolution_0_143 0..1
Float		 Resolution at FSC=0 direct
resolution_0_5 0..1
Float		 Resolution at FSC=0 direct
map_sharpening_bfactor 0..1
Float		 B-factor used for map sharpening in Angstroms^2 direct
description 0..1
String		 AttributeGroup

Usages

used by used in type used
WorkflowRun refinement_params range RefinementParameters

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: RefinementParameters
description: Parameters specific to 3D refinement workflows
from_schema: https://w3id.org/lambda-ber-schema/
is_a: AttributeGroup
attributes:
  symmetry:
    name: symmetry
    description: Symmetry applied (C1, Cn, Dn, T, O, I)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - RefinementParameters
    range: SymmetryEnum
  pixel_size:
    name: pixel_size
    description: Pixel size in Angstroms per pixel
    from_schema: https://w3id.org/lambda-ber-schema/
    domain_of:
    - Image
    - RefinementParameters
    range: float
  box_size:
    name: box_size
    description: Box size in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    domain_of:
    - ParticlePickingParameters
    - RefinementParameters
    range: integer
  gold_standard:
    name: gold_standard
    description: Whether gold-standard refinement was used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - RefinementParameters
    range: boolean
  split_strategy:
    name: split_strategy
    description: Strategy for data splitting
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - RefinementParameters
    range: string
  resolution_0_143:
    name: resolution_0_143
    description: Resolution at FSC=0.143 in Angstroms
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - RefinementParameters
    range: float
  resolution_0_5:
    name: resolution_0_5
    description: Resolution at FSC=0.5 in Angstroms
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - RefinementParameters
    range: float
  map_sharpening_bfactor:
    name: map_sharpening_bfactor
    description: B-factor used for map sharpening in Angstroms^2
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - RefinementParameters
    range: float

Induced

name: RefinementParameters
description: Parameters specific to 3D refinement workflows
from_schema: https://w3id.org/lambda-ber-schema/
is_a: AttributeGroup
attributes:
  symmetry:
    name: symmetry
    description: Symmetry applied (C1, Cn, Dn, T, O, I)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: symmetry
    owner: RefinementParameters
    domain_of:
    - RefinementParameters
    range: SymmetryEnum
  pixel_size:
    name: pixel_size
    description: Pixel size in Angstroms per pixel
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: pixel_size
    owner: RefinementParameters
    domain_of:
    - Image
    - RefinementParameters
    range: float
  box_size:
    name: box_size
    description: Box size in pixels
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: box_size
    owner: RefinementParameters
    domain_of:
    - ParticlePickingParameters
    - RefinementParameters
    range: integer
  gold_standard:
    name: gold_standard
    description: Whether gold-standard refinement was used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: gold_standard
    owner: RefinementParameters
    domain_of:
    - RefinementParameters
    range: boolean
  split_strategy:
    name: split_strategy
    description: Strategy for data splitting
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: split_strategy
    owner: RefinementParameters
    domain_of:
    - RefinementParameters
    range: string
  resolution_0_143:
    name: resolution_0_143
    description: Resolution at FSC=0.143 in Angstroms
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: resolution_0_143
    owner: RefinementParameters
    domain_of:
    - RefinementParameters
    range: float
  resolution_0_5:
    name: resolution_0_5
    description: Resolution at FSC=0.5 in Angstroms
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: resolution_0_5
    owner: RefinementParameters
    domain_of:
    - RefinementParameters
    range: float
  map_sharpening_bfactor:
    name: map_sharpening_bfactor
    description: B-factor used for map sharpening in Angstroms^2
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: map_sharpening_bfactor
    owner: RefinementParameters
    domain_of:
    - RefinementParameters
    range: float
  description:
    name: description
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: description
    owner: RefinementParameters
    domain_of:
    - NamedThing
    - AttributeGroup
    range: string